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@article{DBLP:journals/bmcbi/VermaRM24,
author = {Ghanshyam Verma and
Dietrich Rebholz{-}Schuhmann and
Michael G. Madden},
title = {Enabling personalised disease diagnosis by combining a patient's time-specific
gene expression profile with a biomedical knowledge base},
journal = {{BMC} Bioinform.},
volume = {25},
number = {1},
pages = {62},
year = {2024}
}
@article{DBLP:journals/cbm/HanKL24,
author = {Jiyeon Han and
Min Ji Kang and
Sanghyuk Lee},
title = {{DRSPRING:} Graph convolutional network (GCN)-Based drug synergy prediction
utilizing drug-induced gene expression profile},
journal = {Comput. Biol. Medicine},
volume = {174},
pages = {108436},
year = {2024}
}
@article{DBLP:journals/cmpb/ZanfardinoFG24,
author = {Mario Zanfardino and
Monica Franzese and
Filippo Geraci},
title = {DeClUt: Decluttering differentially expressed genes through clustering
of their expression profiles},
journal = {Comput. Methods Programs Biomed.},
volume = {254},
pages = {108258},
year = {2024}
}
@article{DBLP:journals/fbinf/LuoNJMPLYDQAJY24,
author = {Xihaier Luo and
Seyednami Niyakan and
Patrick R. Johnstone and
Sean McCorkle and
Gilchan Park and
Vanessa L{\'{o}}pez{-}Marrero and
Shinjae Yoo and
Edward R. Dougherty and
Xiaoning Qian and
Francis J. Alexander and
Shantenu Jha and
Byung{-}Jun Yoon},
title = {Pathway-based analyses of gene expression profiles at low doses of
ionizing radiation},
journal = {Frontiers Bioinform.},
volume = {4},
year = {2024}
}
@inproceedings{DBLP:conf/aaai/0027Y24,
author = {Chen Li and
Yoshihiro Yamanishi},
title = {GxVAEs: Two Joint VAEs Generate Hit Molecules from Gene Expression
Profiles},
booktitle = {{AAAI}},
pages = {13455--13463},
publisher = {{AAAI} Press},
year = {2024}
}
@inproceedings{DBLP:conf/bildmed/MonroyREOBVBM24,
author = {Luis Carlos Rivera Monroy and
Leonhard Rist and
Martin Eberhardt and
Christian Ostalecki and
Andreas Bauer and
Julio Vera and
Katharina Breininger and
Andreas K. Maier},
title = {Comparative Analysis of Radiomic Features and Gene Expression Profiles
in Histopathology Data using Graph Neural Networks},
booktitle = {Bildverarbeitung f{\"{u}}r die Medizin},
series = {Informatik Aktuell},
pages = {160--165},
publisher = {Springer},
year = {2024}
}
@article{DBLP:journals/aarc/MikhailovKSK23,
author = {Alexei M. Mikhailov and
Mikhail F. Karavai and
Vladimir A. Sivtsov and
Maria A. Kurnikova},
title = {Machine Learning for Diagnosis of Diseases with Complete Gene Expression
Profile},
journal = {Autom. Remote. Control.},
volume = {84},
number = {7},
pages = {727--733},
year = {2023}
}
@article{DBLP:journals/bib/SebastianRK23,
author = {Softya Sebastian and
Swarup Roy and
Jugal Kalita},
title = {A generic parallel framework for inferring large-scale gene regulatory
networks from expression profiles: application to Alzheimer's disease
network},
journal = {Briefings Bioinform.},
volume = {24},
number = {1},
year = {2023}
}
@article{DBLP:journals/bmcbi/ChenNLZL23,
author = {Jiaxing Chen and
Yen Kaow Ng and
Lu Lin and
Xianglilan Zhang and
Shuaicheng Li},
title = {On triangle inequalities of correlation-based distances for gene expression
profiles},
journal = {{BMC} Bioinform.},
volume = {24},
number = {1},
pages = {40},
year = {2023}
}
@article{DBLP:journals/cbm/HossenIRKHTFKM23,
author = {Md Bayazid Hossen and
Md Ariful Islam and
Md Selim Reza and
Md Kaderi Kibria and
Md Abu Horaira and
Khanis Farhana Tuly and
Md. Omar Faruqe and
Firoz Kabir and
Md. Nurul Haque Mollah},
title = {Robust identification of common genomic biomarkers from multiple gene
expression profiles for the prognosis, diagnosis, and therapies of
pancreatic cancer},
journal = {Comput. Biol. Medicine},
volume = {152},
pages = {106411},
year = {2023}
}
@article{DBLP:journals/mbec/KishoreVPMJ23,
author = {Akash Kishore and
Lokeswari Venkataramana and
D. Venkata Vara Prasad and
Akshaya Mohan and
Bhavya Jha},
title = {Enhancing the prediction of {IDC} breast cancer staging from gene
expression profiles using hybrid feature selection methods and deep
learning architecture},
journal = {Medical Biol. Eng. Comput.},
volume = {61},
number = {11},
pages = {2895--2919},
year = {2023}
}
@article{DBLP:journals/ploscb/KasianovKMBLP23,
author = {Artem S. Kasianov and
Anna V. Klepikova and
Alexey V. Mayorov and
Gleb S. Buzanov and
Maria D. Logacheva and
Aleksey A. Penin},
title = {Interspecific comparison of gene expression profiles using machine
learning},
journal = {PLoS Comput. Biol.},
volume = {19},
number = {1},
year = {2023}
}
@article{DBLP:journals/tcbb/LiXLMLFZL23,
author = {Aimin Li and
Siqi Xiong and
Junhuai Li and
Saurav Mallik and
Yajun Liu and
Rong Fei and
Hongfang Zhou and
Guangming Liu},
title = {AngClust: Angle Feature-Based Clustering for Short Time Series Gene
Expression Profiles},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {20},
number = {2},
pages = {1574--1580},
year = {2023}
}
@inproceedings{DBLP:conf/bibm/YuZDG23,
author = {Liang Yu and
Huan Zhu and
Da Dong and
Lin Gao},
title = {Gene Expression Profile Prediction under Drug Action Based on Generative
Adversarial Networks},
booktitle = {{BIBM}},
pages = {203--208},
publisher = {{IEEE}},
year = {2023}
}
@inproceedings{DBLP:conf/daset/AbdullahY23,
author = {Mohammad Nasir Abdullah and
Bee Wah Yap},
title = {Evaluation of Machine Learning Models for Breast Cancer Detection
in Microarray Gene Expression Profiles},
booktitle = {DaSET},
series = {Lecture Notes on Data Engineering and Communications Technologies},
volume = {191},
pages = {563--576},
publisher = {Springer},
year = {2023}
}
@inproceedings{DBLP:conf/evoapps/RojasVelazquezTRKR13,
author = {David Rojas{-}Velazquez and
Alberto Tonda and
Itzel Rodr{\'{\i}}guez{-}Guerra and
Aletta D. Kraneveld and
Alejandro Lopez Rincon},
title = {Multi-objective Evolutionary Discretization of Gene Expression Profiles:
Application to {COVID-19} Severity Prediction},
booktitle = {EvoApplications@EvoStar},
series = {Lecture Notes in Computer Science},
volume = {13989},
pages = {703--717},
publisher = {Springer},
year = {2023}
}
@article{DBLP:journals/corr/abs-2301-01769,
author = {Xihaier Luo and
Sean McCorkle and
Gilchan Park and
Vanessa L{\'{o}}pez{-}Marrero and
Shinjae Yoo and
Edward R. Dougherty and
Xiaoning Qian and
Francis J. Alexander and
Byung{-}Jun Yoon},
title = {Comprehensive analysis of gene expression profiles to radiation exposure
reveals molecular signatures of low-dose radiation response},
journal = {CoRR},
volume = {abs/2301.01769},
year = {2023}
}
@article{DBLP:journals/corr/abs-2312-15825,
author = {Luis Carlos Rivera Monroy and
Leonhard Rist and
Martin Eberhardt and
Christian Ostalecki and
Andreas Bauer and
Julio Vera and
Katharina Breininger and
Andreas K. Maier},
title = {Comparative Analysis of Radiomic Features and Gene Expression Profiles
in Histopathology Data Using Graph Neural Networks},
journal = {CoRR},
volume = {abs/2312.15825},
year = {2023}
}
@article{DBLP:journals/bioinformatics/ChenLCZEZ22,
author = {Zhong Chen and
You Lu and
Bo Cao and
Wensheng Zhang and
Andrea Edwards and
Kun Zhang},
title = {Driver gene detection through Bayesian network integration of mutation
and expression profiles},
journal = {Bioinform.},
volume = {38},
number = {10},
pages = {2781--2790},
year = {2022}
}
@article{DBLP:journals/bmcbi/ChenNLZL22,
author = {Jiaxing Chen and
Yen Kaow Ng and
Lu Lin and
Xianglilan Zhang and
Shuaicheng Li},
title = {Correction: On triangle inequalities of correlation-based distances
for gene expression profiles},
journal = {{BMC} Bioinform.},
volume = {23-S},
number = {3},
pages = {571},
year = {2022}
}
@article{DBLP:journals/entropy/MesaRodriguezGEV22,
author = {Ania Mesa{-}Rodr{\'{\i}}guez and
Augusto Gonzalez and
Ernesto Estevez{-}Rams and
Pedro A. Vald{\'{e}}s{-}Sosa},
title = {Cancer Segmentation by Entropic Analysis of Ordered Gene Expression
Profiles},
journal = {Entropy},
volume = {24},
number = {12},
pages = {1744},
year = {2022}
}
@article{DBLP:journals/gpb/ZhuZLOFYZ22,
author = {Yi{-}Heng Zhu and
Chengxin Zhang and
Yan Liu and
Gilbert S. Omenn and
Peter L. Freddolino and
Dong{-}Jun Yu and
Yang Zhang},
title = {TripletGO: Integrating Transcript Expression Profiles with Protein
Homology Inferences for Gene Function Prediction},
journal = {Genom. Proteom. Bioinform.},
volume = {20},
number = {5},
pages = {1013--1027},
year = {2022}
}
@article{DBLP:journals/ijmssc/DeshmukhVG22,
author = {Mandar Krishnarao Deshmukh and
Vinod M. Vaze and
Amit K. Gaikwad},
title = {Coyote-Wolf optimization-based deep neural network for cancer classification
using gene expression profiles},
journal = {Int. J. Model. Simul. Sci. Comput.},
volume = {13},
number = {6},
pages = {2250058:1--2250058:27},
year = {2022}
}
@article{DBLP:journals/nar/LiuYLJTDHH22,
author = {Jinding Liu and
Fei Yin and
Kun Lang and
Wencai Jie and
Suxu Tan and
Rongjing Duan and
Shuiqing Huang and
Wen Huang},
title = {MetazExp: a database for gene expression and alternative splicing
profiles and their analyses based on 53 615 public RNA-seq samples
in 72 metazoan species},
journal = {Nucleic Acids Res.},
volume = {50},
number = {{D1}},
pages = {1046--1054},
year = {2022}
}
@article{DBLP:journals/nar/ZhangZZXCNZPJSL22,
author = {Yuansheng Zhang and
Dong Zou and
Tongtong Zhu and
Tianyi Xu and
Ming Chen and
Guangyi Niu and
Wenting Zong and
Rong Pan and
Wei Jing and
Jian Sang and
Chang Liu and
Yujia Xiong and
Yubin Sun and
Shuang Zhai and
Huanxin Chen and
Wenming Zhao and
Jing{-}Fa Xiao and
Yiming Bao and
Lili Hao and
Zhang Zhang},
title = {Gene Expression Nebulas {(GEN):} a comprehensive data portal integrating
transcriptomic profiles across multiple species at both bulk and single-cell
levels},
journal = {Nucleic Acids Res.},
volume = {50},
number = {{D1}},
pages = {1016--1024},
year = {2022}
}
@article{DBLP:journals/nca/HanZLHLGC22,
author = {Fei Han and
Shaojun Zhu and
Qinghua Ling and
Henry Han and
Hailong Li and
Xinli Guo and
Jiechuan Cao},
title = {Gene-CWGAN: a data enhancement method for gene expression profile
based on improved {CWGAN-GP}},
journal = {Neural Comput. Appl.},
volume = {34},
number = {19},
pages = {16325--16339},
year = {2022}
}
@article{DBLP:journals/tcbb/MajumderTPS22,
author = {Subhasree Majumder and
Yogita Thakran and
Vipin Pal and
Kuldeep Singh},
title = {Fuzzy and Rough Set Theory Based Computational Framework for Mining
Genetic Interaction Triplets From Gene Expression Profiles for Lung
Adenocarcinoma},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {19},
number = {6},
pages = {3469--3481},
year = {2022}
}
@article{DBLP:journals/tcbb/SongPW22,
author = {Junrong Song and
Wei Peng and
Feng Wang},
title = {Identifying Cancer Patient Subgroups by Finding Co-Modules From the
Driver Mutation Profiles and Downstream Gene Expression Profiles},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {19},
number = {5},
pages = {2863--2872},
year = {2022}
}
@inproceedings{DBLP:conf/bibm/LuoMPLYDQAY22,
author = {Xihaier Luo and
Sean McCorkle and
Gilchan Park and
Vanessa L{\'{o}}pez{-}Marrero and
Shinjae Yoo and
Edward R. Dougherty and
Xiaoning Qian and
Francis J. Alexander and
Byung{-}Jun Yoon},
title = {Comprehensive analysis of gene expression profiles to radiation exposure
reveals molecular signatures of low-dose radiation response},
booktitle = {{BIBM}},
pages = {2366--2374},
publisher = {{IEEE}},
year = {2022}
}
@inproceedings{DBLP:conf/gecco/MouhrimTRKR22,
author = {Nisrine Mouhrim and
Alberto Tonda and
Itzel Rodr{\'{\i}}guez{-}Guerra and
Aletta D. Kraneveld and
Alejandro Lopez Rincon},
title = {An evolutionary approach to the discretization of gene expression
profiles to predict the severity of {COVID-19}},
booktitle = {{GECCO} Companion},
pages = {731--734},
publisher = {{ACM}},
year = {2022}
}
@inproceedings{DBLP:conf/icimth/AuerAM022,
author = {Florian Auer and
Zhibek Abdykalykova and
Dominik M{\"{u}}ller and
Frank Kramer},
title = {Adaptation of {HL7} {FHIR} for the Exchange of Patients' Gene Expression
Profiles},
booktitle = {{ICIMTH}},
series = {Studies in Health Technology and Informatics},
volume = {295},
pages = {332--335},
publisher = {{IOS} Press},
year = {2022}
}
@inproceedings{DBLP:conf/isdmci/LiakhBDG22,
author = {Igor Liakh and
Sergii Babichev and
Bohdan Durnyak and
Iryna Gado},
title = {Formation of Subsets of Co-expressed Gene Expression Profiles Based
on Joint Use of Fuzzy Inference System, Statistical Criteria and Shannon
Entropy},
booktitle = {{ISDMCI}},
series = {Lecture Notes on Data Engineering and Communications Technologies},
volume = {149},
pages = {25--41},
publisher = {Springer},
year = {2022}
}
@inproceedings{DBLP:conf/iwbbio/Bustos-AibarATA22,
author = {Mireia Bustos{-}Aibar and
Augusto Anguita{-}Ruiz and
{\'{A}}lvaro Torres{-}Martos and
Jes{\'{u}}s Alcal{\'{a}}{-}Fdez and
Francisco Javier Ruiz{-}Ojeda and
Marjorie Reyes{-}Farias and
Andrea Soria{-}Gondek and
Laura Herrero and
David S{\'{a}}nchez{-}Infantes and
Concepci{\'{o}}n Maria Aguilera},
title = {Gene Expression Profiles of Visceral and Subcutaneous Adipose Tissues
in Children with Overweight or Obesity: The {KIDADIPOSEQ} Project},
booktitle = {{IWBBIO} {(1)}},
series = {Lecture Notes in Computer Science},
volume = {13346},
pages = {42--46},
publisher = {Springer},
year = {2022}
}
@inproceedings{DBLP:conf/mie/AuerAM022,
author = {Florian Auer and
Zhibek Abdykalykova and
Dominik M{\"{u}}ller and
Frank Kramer},
title = {Implementation of Gene Expression Profiles in the {HL7} {FHIR} Standard},
booktitle = {{MIE}},
series = {Studies in Health Technology and Informatics},
volume = {294},
pages = {417--418},
publisher = {{IOS} Press},
year = {2022}
}
@inproceedings{DBLP:conf/ricai/WuZ22,
author = {Di Wu and
Yafei Zhang},
title = {A Data Enhancement Method for Gene Expression Profile Based on Improved
conditional {SN-GAN}},
booktitle = {{RICAI}},
pages = {1059--1064},
publisher = {{ACM}},
year = {2022}
}
@inproceedings{DBLP:conf/scdm/AhmadKT22,
author = {Farzana Kabir Ahmad and
Siti Sakira Kamaruddin and
Aysar Thamer Naser Tuaimah},
title = {Binary Bat Algorithm with Dynamic Bayesian Network for Feature Selection
on Cancer Gene Expression Profiles},
booktitle = {{SCDM}},
series = {Lecture Notes in Networks and Systems},
volume = {457},
pages = {150--159},
publisher = {Springer},
year = {2022}
}
@article{DBLP:journals/bib/HuLLZG21,
author = {Fei{-}Fei Hu and
Chun{-}Jie Liu and
Lan{-}Lan Liu and
Qiong Zhang and
An{-}Yuan Guo},
title = {Expression profile of immune checkpoint genes and their roles in predicting
immunotherapy response},
journal = {Briefings Bioinform.},
volume = {22},
number = {3},
year = {2021}
}
@article{DBLP:journals/bib/WangLWFW21,
author = {Xiaokang Wang and
Jinfeng Liu and
Danwen Wang and
Maohui Feng and
Xiongzhi Wu},
title = {Epigenetically regulated gene expression profiles reveal four molecular
subtypes with prognostic and therapeutic implications in colorectal
cancer},
journal = {Briefings Bioinform.},
volume = {22},
number = {4},
year = {2021}
}
@article{DBLP:journals/bib/ZhangLLG21,
author = {Qiong Zhang and
Mei Luo and
Chun{-}Jie Liu and
An{-}Yuan Guo},
title = {{CCLA:} an accurate method and web server for cancer cell line authentication
using gene expression profiles},
journal = {Briefings Bioinform.},
volume = {22},
number = {3},
year = {2021}
}
@article{DBLP:journals/bmcbi/FukushimaSHH21,
author = {Arika Fukushima and
Masahiro Sugimoto and
Satoru Hiwa and
Tomoyuki Hiroyasu},
title = {Bayesian approach for predicting responses to therapy from high-dimensional
time-course gene expression profiles},
journal = {{BMC} Bioinform.},
volume = {22},
number = {1},
pages = {132},
year = {2021}
}
@article{DBLP:journals/bmcbi/GaoHLLXSZZ21,
author = {Shengqiao Gao and
Lu Han and
Dan Luo and
Gang Liu and
Zhiyong Xiao and
Guangcun Shan and
Yongxiang Zhang and
Wenxia Zhou},
title = {Modeling drug mechanism of action with large scale gene-expression
profiles using GPAR, an artificial intelligence platform},
journal = {{BMC} Bioinform.},
volume = {22},
number = {1},
pages = {17},
year = {2021}
}
@article{DBLP:journals/eswa/KochanTG21,
author = {Necla Kochan and
G. Yazgi T{\"{u}}t{\"{u}}nc{\"{u}} and
G{\"{o}}knur Giner},
title = {A new local covariance matrix estimation for the classification of
gene expression profiles in high dimensional RNA-Seq data},
journal = {Expert Syst. Appl.},
volume = {167},
pages = {114200},
year = {2021}
}
@article{DBLP:journals/jbcb/NooriAA21,
author = {Soheir Noori and
Nabeel Al{-}A'Araji and
Eman Al{-}Shamery},
title = {Identifying protein complexes from protein-protein interaction networks
based on the gene expression profile and core-attachment approach},
journal = {J. Bioinform. Comput. Biol.},
volume = {19},
number = {3},
pages = {2150009:1--2150009:17},
year = {2021}
}
@article{DBLP:journals/patterns/AneneKBM021,
author = {Chinedu Anthony Anene and
Faraz Khan and
Findlay Bewicke{-}Copley and
Eleni Maniati and
Jun Wang},
title = {{ACSNI:} An unsupervised machine-learning tool for prediction of tissue-specific
pathway components using gene expression profiles},
journal = {Patterns},
volume = {2},
number = {6},
pages = {100270},
year = {2021}
}
@article{DBLP:journals/symmetry/BabichevYLD21,
author = {Sergii Babichev and
Lyudmyla Yasinska{-}Damri and
Igor Liakh and
Bohdan Durnyak},
title = {Comparison Analysis of Gene Expression Profiles Proximity Metrics},
journal = {Symmetry},
volume = {13},
number = {10},
pages = {1812},
year = {2021}
}
@inproceedings{DBLP:conf/adma/Sazzed22,
author = {Salim Sazzed},
title = {Feature Selection in Gene Expression Profile Employing Relevancy and
Redundancy Measures and Binary Whale Optimization Algorithm {(BWOA)}},
booktitle = {{ADMA}},
series = {Lecture Notes in Computer Science},
volume = {13087},
pages = {45--60},
publisher = {Springer},
year = {2021}
}
@inproceedings{DBLP:conf/ai/Sazzed21,
author = {Salim Sazzed},
title = {{ANOVA-SRC-BPSO:} a hybrid filter and swarm optimization-based method
for gene selection and cancer classification using gene expression
profiles},
booktitle = {Canadian {AI}},
publisher = {Canadian Artificial Intelligence Association},
year = {2021}
}
@inproceedings{DBLP:conf/bibm/LyuZYLLJBMB21,
author = {Minjie Lyu and
Yihan Zhang and
Luning Yang and
Xin Lin and
Yilin Li and
Huan Jin and
Anthony Graham Bellotti and
Nenad Mitic and
Vladimir Brusic},
title = {{PBMC} Cell Classification from Single Cell mRNA Expression by Artificial
Neural Networks, Profiles, Gene Markers, and Protein Markers},
booktitle = {{BIBM}},
pages = {3285--3290},
publisher = {{IEEE}},
year = {2021}
}
@inproceedings{DBLP:conf/bibm/ZhaoHWFWGZNZ21,
author = {Cecheng Zhao and
Ziyang Huang and
Hui Wang and
Haitao Fu and
Dong Wang and
Yingjie Gao and
Haotian Zhu and
Xiaohui Niu and
Wen Zhang},
title = {A robust drug representation learning model for eliminating cell specificity
in gene expression profile and its application},
booktitle = {{BIBM}},
pages = {1191--1196},
publisher = {{IEEE}},
year = {2021}
}
@inproceedings{DBLP:conf/iddm/Yasinska-DamriL21,
author = {Lyudmyla Yasinska{-}Damri and
Igor Liakh and
Sergii Babichev and
Bohdan Durnyak},
title = {Evaluation of the Gene Expression Profiles Complex Proximity Metric
Effectiveness Based on a Hybrid Technique of Gene Expression Data
Extraction},
booktitle = {{IDDM}},
series = {{CEUR} Workshop Proceedings},
volume = {3038},
pages = {150--160},
publisher = {CEUR-WS.org},
year = {2021}
}
@inproceedings{DBLP:conf/ncaa/Zhu021,
author = {Shaojun Zhu and
Fei Han},
title = {A Data Enhancement Method for Gene Expression Profile Based on Improved
{WGAN-GP}},
booktitle = {{NCAA}},
series = {Communications in Computer and Information Science},
volume = {1449},
pages = {242--254},
publisher = {Springer},
year = {2021}
}
@article{DBLP:journals/bib/YangZXHZQXWF20,
author = {Yadong Yang and
Tao Zhang and
Rudan Xiao and
Xiaopeng Hao and
Huiqiang Zhang and
Hongzhu Qu and
Bingbing Xie and
Tao Wang and
Xiangdong Fang},
title = {Platform-independent approach for cancer detection from gene expression
profiles of peripheral blood cells},
journal = {Briefings Bioinform.},
volume = {21},
number = {3},
pages = {1006--1015},
year = {2020}
}
@article{DBLP:journals/candc/Sut20,
author = {Burcu Biterge S{\"{u}}t},
title = {Computational analysis of {TP53} vs. {CTNNB1} mutations in hepatocellular
carcinoma suggests distinct cancer subtypes with differential gene
expression profiles and chromatin states},
journal = {Comput. Biol. Chem.},
volume = {89},
pages = {107404},
year = {2020}
}
@article{DBLP:journals/candc/ZhuZDHX20,
author = {Naiqiang Zhu and
Peng Zhang and
Lilong Du and
Jingyi Hou and
Baoshan Xu},
title = {Identification of key genes and expression profiles in osteoarthritis
by co-expressed network analysis},
journal = {Comput. Biol. Chem.},
volume = {85},
pages = {107225},
year = {2020}
}
@article{DBLP:journals/gpb/WangCHSHYCSW20,
author = {Jun Wang and
Xiaowen Chen and
Funan He and
Xiao Song and
Shu Huang and
Wucheng Yue and
Yipei Chen and
Zhixi Su and
Chenghui Wang},
title = {Global Analysis of Gene Expression Profiles Provides Novel Insights
into the Development and Evolution of the Large Crustacean \emph{Eriocheir
sinensis}},
journal = {Genom. Proteom. Bioinform.},
volume = {18},
number = {4},
pages = {443--454},
year = {2020}
}
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Hojung Nam},
title = {Prognostic Factor Analysis for Breast Cancer Using Gene Expression
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year = {2015}
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title = {Renal Gene Expression Database {(RGED):} a relational database of
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title = {A Supervised Network Analysis on Gene Expression Profiles of Breast
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booktitle = {{BIBM}},
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author = {Gerald T. Quon},
title = {Probabilistic Models for the Analysis of Gene Expression Profiles},
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Victoria Su{\'{a}}rez{-}Ulloa and
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Juli{\'{a}}n Dorado},
title = {Clustering of Gene Expression Profiles Applied to Marine Research},
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for Identifying Functional Modules},
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and its Application in Cancer Gene Expression Profiles},
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title = {Evaluating Correlation Coefficients for Clustering Gene Expression
Profiles of Cancer},
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pages = {120--131},
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title = {Finding hidden relationships between gene expression profiles with
application to breast cancer biology},
school = {University of Melbourne, Australia},
year = {2011}
}
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Kalle A. Ojala and
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reference database: New method for context-specific interpretation
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Sven Berres and
Anne McArdle and
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title = {Gathering insights on disease etiology from gene expression profiles
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title = {Building gene expression profile classifiers with a simple and efficient
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from Gene Expression Profiles},
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Dawn L. DeMeo and
Steven Shapiro and
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Hung{-}I Harry Chen and
Patricia C. Sanchez{-}Diaz and
Jaclyn Y. Hung and
Yidong Chen and
Yufei Huang},
title = {Gene sets enrichment analysis of miRNA expression profile},
booktitle = {{BIBM} Workshops},
pages = {449--454},
publisher = {{IEEE} Computer Society},
year = {2011}
}
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author = {Chun{-}E. Wang and
Rui{-}Kai Wang and
Jin{-}Ying Dai and
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title = {Phylogeny and expression profile analyses of oleate- and linoleate-desaturase
genes in soybean},
booktitle = {{BMEI}},
pages = {1584--1587},
publisher = {{IEEE}},
year = {2011}
}
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author = {Fang{-}Han Hsu and
Erchin Serpedin and
Tzu{-}Hung Hsiao and
Alexander J. R. Bishop and
Edward R. Dougherty and
Yidong Chen},
title = {Identifying genes associated with chemotherapy response in ovarian
carcinomas based on {DNA} copy number and expression profiles},
booktitle = {GENSiPS},
pages = {46--49},
publisher = {{IEEE}},
year = {2011}
}
@inproceedings{DBLP:conf/icic/WangLW11,
author = {Shu{-}Lin Wang and
Min Li and
Hongqiang Wang},
title = {Using 2D Principal Component Analysis to Reduce Dimensionality of
Gene Expression Profiles for Tumor Classification},
booktitle = {{ICIC} {(3)}},
series = {Lecture Notes in Computer Science},
volume = {6840},
pages = {588--595},
publisher = {Springer},
year = {2011}
}
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author = {Yosef Prat and
Menachem Fromer and
Michal Linial and
Nathan Linial},
title = {Geometric Interpretation of Gene Expression by Sparse Reconstruction
of Transcript Profiles},
booktitle = {{RECOMB}},
series = {Lecture Notes in Computer Science},
volume = {6577},
pages = {355--357},
publisher = {Springer},
year = {2011}
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author = {Aitana Morton de Lachapelle and
Sven Bergmann},
title = {A New Scaling Measure Quantifies the Conservation of Proportions of
Gene Expression Profiles in Developing Organic Shapes},
booktitle = {{SHAPES}},
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author = {G. Victo Sudha George and
Velankanni Cyril Raj},
title = {Review on Feature Selection Techniques and the Impact of {SVM} for
Cancer Classification using Gene Expression Profile},
journal = {CoRR},
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year = {2011}
}
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author = {Atsushi Niida and
Seiya Imoto and
Rui Yamaguchi and
Masao Nagasaki and
Andr{\'{e}} Fujita and
Teppei Shimamura and
Satoru Miyano},
title = {Model-free unsupervised gene set screening based on information enrichment
in expression profiles},
journal = {Bioinform.},
volume = {26},
number = {24},
pages = {3090--3097},
year = {2010}
}
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author = {Numanul Subhani and
Luis Rueda and
Alioune Ngom and
Conrad J. Burden},
title = {Multiple gene expression profile alignment for microarray time-series
data clustering},
journal = {Bioinform.},
volume = {26},
number = {18},
pages = {2281--2288},
year = {2010}
}
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author = {Ping{-}Shi Wu and
Hans{-}Georg M{\"{u}}ller},
title = {Functional embedding for the classification of gene expression profiles},
journal = {Bioinform.},
volume = {26},
number = {4},
pages = {509--517},
year = {2010}
}
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author = {Ferran Reverter and
Esteban Vegas and
Pedro S{\'{a}}nchez},
title = {Mining Gene Expression Profiles: An Integrated Implementation of Kernel
Principal Component Analysis and Singular Value Decomposition},
journal = {Genom. Proteom. Bioinform.},
volume = {8},
number = {3},
pages = {200--210},
year = {2010}
}
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author = {Manik Dhawan and
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Zhong{-}Hui Duan},
title = {Application of committee kNN classifiers for gene expression profile
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journal = {Int. J. Bioinform. Res. Appl.},
volume = {6},
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pages = {344--352},
year = {2010}
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author = {Qian You and
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Jake Yue Chen},
title = {GeneTerrain: Visual exploration of differential gene expression profiles
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journal = {Inf. Vis.},
volume = {9},
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pages = {1--12},
year = {2010}
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author = {Shulin Wang and
Jie Gui and
Xueling Li},
title = {Factor Analysis for Cross-Platform Tumor Classification Based on Gene
Expression Profiles},
journal = {J. Circuits Syst. Comput.},
volume = {19},
number = {1},
pages = {243--258},
year = {2010}
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author = {Wim De Mulder and
Martin Kuiper and
Ren{\'{e}} K. Boel},
title = {Clustering of gene expression profiles: creating initialization-independent
clusterings by eliminating unstable genes},
journal = {J. Integr. Bioinform.},
volume = {7},
number = {3},
year = {2010}
}
@article{DBLP:journals/jmma/FersiniMAM10,
author = {Elisabetta Fersini and
Enza Messina and
Francesco Archetti and
Cristina E. Manfredotti},
title = {Combining Gene Expression Profiles and Drug Activity Patterns Analysis:
{A} Relational Clustering Approach},
journal = {J. Math. Model. Algorithms},
volume = {9},
number = {3},
pages = {275--289},
year = {2010}
}
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author = {Liping Jing and
Michael K. Ng and
Ying Liu},
title = {Construction of gene networks with hybrid approach from expression
profile and gene ontology},
journal = {{IEEE} Trans. Inf. Technol. Biomed.},
volume = {14},
number = {1},
pages = {107--118},
year = {2010}
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author = {Fang{-}Xiang Wu and
Wen{-}Jun Zhang},
title = {Dynamic-model-based method for selecting significantly expressed genes
from time-course expression profiles},
journal = {{IEEE} Trans. Inf. Technol. Biomed.},
volume = {14},
number = {1},
pages = {16--22},
year = {2010}
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author = {Li An and
Desmond J. Smith and
Hongbo M. Xie and
Vasileios Megalooikonomou and
Zoran Obradovic},
title = {Identifying gene functions using functional expression profiles obtained
by voxelation},
booktitle = {{BCB}},
pages = {188--197},
publisher = {{ACM}},
year = {2010}
}
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author = {Tzu{-}Pin Lu and
Liang{-}Chuan Lai and
Chuhsing Kate Hsiao and
Pei{-}Chun Chen and
Mong{-}Hsun Tsai and
Eric Y. Chuang},
title = {Concurrent analysis of copy number variations and expression profiles
to identify genes associated with tumorigenesis and survival outcome
in lung adenocarcinoma},
booktitle = {{BIBM}},
pages = {284--289},
publisher = {{IEEE} Computer Society},
year = {2010}
}
@inproceedings{DBLP:conf/bionetics/LicameleG10,
author = {Louis Licamele and
Lise Getoor},
title = {A Method for the Detection of Meaningful and Reproducible Group Signatures
from Gene Expression Profiles},
booktitle = {{BIONETICS}},
series = {Lecture Notes of the Institute for Computer Sciences, Social Informatics
and Telecommunications Engineering},
volume = {87},
pages = {387--401},
publisher = {Springer},
year = {2010}
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@inproceedings{DBLP:conf/biostec/NgW10,
author = {Ka{-}Lok Ng and
Chia{-}Wei Weng},
title = {In Silico Study of Expression Profiles Correlation between MicroRNAs
and Cancerous Genes},
booktitle = {{BIOINFORMATICS}},
pages = {141--146},
publisher = {{INSTICC} Press},
year = {2010}
}
@inproceedings{DBLP:conf/icmlc/TangY10,
author = {Tsz{-}Yan Tang and
Hong Yan},
title = {Identifying periodicity of microarray gene expression profiles by
autoregressive modeling and spectral estimation},
booktitle = {{ICMLC}},
pages = {3062--3066},
publisher = {{IEEE}},
year = {2010}
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author = {Daniel Urda and
Jos{\'{e}} Luis Subirats and
Leonardo Franco and
Jos{\'{e}} Manuel Jerez},
title = {Constructive Neural Networks to Predict Breast Cancer Outcome by Using
Gene Expression Profiles},
booktitle = {{IEA/AIE} {(1)}},
series = {Lecture Notes in Computer Science},
volume = {6096},
pages = {317--326},
publisher = {Springer},
year = {2010}
}
@inproceedings{DBLP:conf/isnn/ZhangLY10,
author = {Weifeng Zhang and
Chao{-}Chun Liu and
Hong Yan},
title = {Temporal Gene Expression Profiles Reconstruction by Support Vector
Regression and Framelet Kernel},
booktitle = {{ISNN} {(2)}},
series = {Lecture Notes in Computer Science},
volume = {6064},
pages = {68--74},
publisher = {Springer},
year = {2010}
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author = {Alexandros Kanterakis and
Giorgos otamias and
Giorgos Zacharioudakis and
Lefteris Koumakis and
Stelios Sfakianakis and
Manolis Tsiknakis},
title = {Scientific discovery workflows in bioinformatics: {A} scenario for
the coupling of molecular regulatory pathways and gene-expression
profiles},
booktitle = {MedInfo},
series = {Studies in Health Technology and Informatics},
volume = {160},
pages = {1304--1308},
publisher = {{IOS} Press},
year = {2010}
}
@inproceedings{DBLP:conf/setn/PotamiasKKM10,
author = {George Potamias and
Lefteris Koumakis and
Alexandros Kanterakis and
Vassilis Moustakis},
title = {Towards the Discovery of Reliable Biomarkers from Gene-Expression
Profiles: An Iterative Constraint Satisfaction Learning Approach},
booktitle = {{SETN}},
series = {Lecture Notes in Computer Science},
volume = {6040},
pages = {233--242},
publisher = {Springer},
year = {2010}
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author = {Minggang Du and
Shanwen Zhang and
Hong Wang},
title = {Tumor Classification Using High-Order Gene Expression Profiles Based
on Multilinear {ICA}},
journal = {Adv. Bioinformatics},
volume = {2009},
pages = {926450:1--926450:9},
year = {2009}
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author = {Jo{\~{a}}o Pedro de Magalh{\~{a}}es and
Jo{\~{a}}o Curado and
George M. Church},
title = {Meta-analysis of age-related gene expression profiles identifies common
signatures of aging},
journal = {Bioinform.},
volume = {25},
number = {7},
pages = {875--881},
year = {2009}
}
@article{DBLP:journals/bioinformatics/QiZLS09,
author = {Qihao Qi and
Yingdong Zhao and
Ming{-}Chung Li and
Richard M. Simon},
title = {Non-negative matrix factorization of gene expression profiles: a plug-in
for BRB-ArrayTools},
journal = {Bioinform.},
volume = {25},
number = {4},
pages = {545--547},
year = {2009}
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author = {Je{-}Gun Joung and
Zhangjun Fei},
title = {Computational identification of condition-specific miRNA targets based
on gene expression profiles and sequence information},
journal = {{BMC} Bioinform.},
volume = {10},
number = {{S-1}},
year = {2009}
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author = {Zhiguang Li and
Zhenqiang Su and
Zhining Wen and
Leming M. Shi and
Tao Chen},
title = {Microarray platform consistency is revealed by biologically functional
analysis of gene expression profiles},
journal = {{BMC} Bioinform.},
volume = {10},
number = {{S-11}},
pages = {12},
year = {2009}
}
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author = {Amin Zollanvari and
Mary Jane Cunningham and
Ulisses M. Braga{-}Neto and
Edward R. Dougherty},
title = {Analysis and modeling of time-course gene-expression profiles from
nanomaterial-exposed primary human epidermal keratinocytes},
journal = {{BMC} Bioinform.},
volume = {10},
number = {{S-11}},
pages = {10},
year = {2009}
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author = {Teppei Shimamura and
Seiya Imoto and
Rui Yamaguchi and
Andr{\'{e}} Fujita and
Masao Nagasaki and
Satoru Miyano},
title = {Recursive regularization for inferring gene networks from time-course
gene expression profiles},
journal = {{BMC} Syst. Biol.},
volume = {3},
pages = {41},
year = {2009}
}
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author = {Fang{-}Xiang Wu and
Zhonghang Xia and
Lei Mu},
title = {Finding Significantly Expressed genes from time-course expression
profiles},
journal = {Int. J. Bioinform. Res. Appl.},
volume = {5},
number = {1},
pages = {50--63},
year = {2009}
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author = {Xi Chen and
Lily Wang},
title = {Integrating Biological Knowledge with Gene Expression Profiles for
Survival Prediction of Cancer},
journal = {J. Comput. Biol.},
volume = {16},
number = {2},
pages = {265--278},
year = {2009}
}
@article{DBLP:journals/pr/HongC09,
author = {Jin{-}Hyuk Hong and
Sung{-}Bae Cho},
title = {Gene boosting for cancer classification based on gene expression profiles},
journal = {Pattern Recognit.},
volume = {42},
number = {9},
pages = {1761--1767},
year = {2009}
}
@article{DBLP:journals/pr/LiewLCY09,
author = {Alan Wee{-}Chung Liew and
Ngai{-}Fong Law and
Xiao{-}Qin Cao and
Hong Yan},
title = {Statistical power of Fisher test for the detection of short periodic
gene expression profiles},
journal = {Pattern Recognit.},
volume = {42},
number = {4},
pages = {549--556},
year = {2009}
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author = {Naoto Yukinawa and
Shigeyuki Oba and
Kikuya Kato and
Shin Ishii},
title = {Optimal Aggregation of Binary Classifiers for Multiclass Cancer Diagnosis
Using Gene Expression Profiles},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {6},
number = {2},
pages = {333--343},
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@inproceedings{DBLP:conf/biocomp/SalinasK09,
author = {Edward Salinas and
Amitava Karmaker},
title = {Analysis of Correlations Between Genes and Tetrads of Transcription
Factors Using Microarray Expression Profiles},
booktitle = {{BIOCOMP}},
pages = {148--152},
publisher = {{CSREA} Press},
year = {2009}
}
@inproceedings{DBLP:conf/csie/ChenSCCE09,
author = {Thomas C. Chen and
Sandeep Sanga and
Tina Y. Chou and
Vittorio Cristini and
Mary E. Edgerton},
title = {Neural Network with K-Means Clustering via {PCA} for Gene Expression
Profile Analysis},
booktitle = {{CSIE} {(3)}},
pages = {670--673},
publisher = {{IEEE} Computer Society},
year = {2009}
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author = {Nidhal Bouaynaya and
Dan Schonfeld and
Radhakrishnan Nagarajan},
title = {Analysis of temporal gene expression profiles using time-dependent
{MUSIC} algorithm},
booktitle = {GENSiPS},
pages = {1--4},
publisher = {{IEEE}},
year = {2009}
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@inproceedings{DBLP:conf/icann/Martin-MerinoR09,
author = {Manuel Mart{\'{\i}}n{-}Merino and
Javier De Las Rivas},
title = {Kernel Alignment \emph{k}-NN for Human Cancer Classification Using
the Gene Expression Profiles},
booktitle = {{ICANN} {(2)}},
series = {Lecture Notes in Computer Science},
volume = {5769},
pages = {195--204},
publisher = {Springer},
year = {2009}
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@inproceedings{DBLP:conf/icic/ChenH09,
author = {Yu Chen and
Kyungsook Han},
title = {Dynamic Identification and Visualization of Gene Regulatory Networks
from Time-Series Gene Expression Profiles},
booktitle = {{ICIC} {(1)}},
series = {Lecture Notes in Computer Science},
volume = {5754},
pages = {65--74},
publisher = {Springer},
year = {2009}
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author = {Aleksey Fadeev and
Oualid Missaoui and
Hichem Frigui},
title = {Ensemble Possibilistic {K-NN} for Functional Clustering of Gene Expression
Profiles in Human Cancers Challenge},
booktitle = {{ICMLA}},
pages = {439--442},
publisher = {{IEEE} Computer Society},
year = {2009}
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author = {Manuel Mart{\'{\i}}n{-}Merino and
Javier De Las Rivas},
title = {Improving k-NN for Human Cancer Classification Using the Gene Expression
Profiles},
booktitle = {{IDA}},
series = {Lecture Notes in Computer Science},
volume = {5772},
pages = {107--118},
publisher = {Springer},
year = {2009}
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author = {Min A. Jhun and
Taesung Park},
title = {Clustering Method to Identify Gene Sets with Similar Expression Profiles
in Adjacent Chromosomal Regions},
booktitle = {{IWANN} {(1)}},
series = {Lecture Notes in Computer Science},
volume = {5517},
pages = {837--844},
publisher = {Springer},
year = {2009}
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author = {Numanul Subhani and
Alioune Ngom and
Luis Rueda and
Conrad J. Burden},
title = {Microarray Time-Series Data Clustering via Multiple Alignment of Gene
Expression Profiles},
booktitle = {{PRIB}},
series = {Lecture Notes in Computer Science},
volume = {5780},
pages = {377--390},
publisher = {Springer},
year = {2009}
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author = {Akther Shermin and
Mehmet A. Orgun},
title = {Using dynamic bayesian networks to infer gene regulatory networks
from expression profiles},
booktitle = {{SAC}},
pages = {799--803},
publisher = {{ACM}},
year = {2009}
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author = {Alan Wee{-}Chung Liew and
Hong Yan},
title = {Reliable Detection of Short Periodic Gene Expression Time Series Profiles
in {DNA} Microarray Data},
booktitle = {{SMC}},
pages = {4274--4279},
publisher = {{IEEE}},
year = {2009}
}
@article{DBLP:journals/artmed/ChiuCL08,
author = {Shih{-}Hau Chiu and
Chien{-}Chi Chen and
Thy{-}Hou Lin},
title = {Using support vector regression to model the correlation between the
clinical metastases time and gene expression profile for breast cancer},
journal = {Artif. Intell. Medicine},
volume = {44},
number = {3},
pages = {221--231},
year = {2008}
}
@article{DBLP:journals/biodatamining/MaCSBKKN08,
author = {Qicheng Ma and
Gung{-}Wei Chirn and
Joseph D. Szustakowski and
Adel Bakhtiarova and
Penelope A. Kosinski and
Daniel M. Kemp and
Nanguneri Nirmala},
title = {Uncovering mechanisms of transcriptional regulations by systematic
mining of cis regulatory elements with gene expression profiles},
journal = {BioData Min.},
volume = {1},
year = {2008}
}
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author = {Anindya Bhattacharya and
Rajat K. De},
title = {Divisive Correlation Clustering Algorithm {(DCCA)} for grouping of
genes: detecting varying patterns in expression profiles},
journal = {Bioinform.},
volume = {24},
number = {11},
pages = {1359--1366},
year = {2008}
}
@article{DBLP:journals/bioinformatics/HiroseYIYHCPM08,
author = {Osamu Hirose and
Ryo Yoshida and
Seiya Imoto and
Rui Yamaguchi and
Tomoyuki Higuchi and
Stephen D. Charnock{-}Jones and
Cristin G. Print and
Satoru Miyano},
title = {Statistical inference of transcriptional module-based gene networks
from time course gene expression profiles by using state space models},
journal = {Bioinform.},
volume = {24},
number = {7},
pages = {932--942},
year = {2008}
}
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author = {Luigi Buonaguro and
Alessandro Monaco and
Eleonora Aric{\`{o}} and
Ena Wang and
Maria Lina Tornesello and
George K. Lewis and
Francesco M. Marincola and
Franco M. Buonaguro},
title = {Gene expression profile of peripheral blood mononuclear cells in response
to HIV-VLPs stimulation},
journal = {{BMC} Bioinform.},
volume = {9},
number = {{S-2}},
year = {2008}
}
@article{DBLP:journals/bmcbi/GormleyT08,
author = {Michael Gormley and
Aydin T{\"{o}}zeren},
title = {Expression profiles of switch-like genes accurately classify tissue
and infectious disease phenotypes in model-based classification},
journal = {{BMC} Bioinform.},
volume = {9},
year = {2008}
}
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author = {Yin{-}Jing Tien and
Yun{-}Shien Lee and
Han{-}Ming Wu and
Chun{-}Houh Chen},
title = {Methods for simultaneously identifying coherent local clusters with
smooth global patterns in gene expression profiles},
journal = {{BMC} Bioinform.},
volume = {9},
year = {2008}
}
@article{DBLP:journals/bmcsb/MarrGHM08,
author = {Carsten Marr and
Marcel Geertz and
Marc{-}Thorsten H{\"{u}}tt and
Georgi Muskhelishvili},
title = {Dissecting the logical types of network control in gene expression
profiles},
journal = {{BMC} Syst. Biol.},
volume = {2},
pages = {18},
year = {2008}
}
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author = {Theo A. Knijnenburg and
Lodewyk F. A. Wessels and
Marcel J. T. Reinders},
title = {Creating gene set activity profiles with time-series expression data},
journal = {Int. J. Bioinform. Res. Appl.},
volume = {4},
number = {3},
pages = {306--323},
year = {2008}
}
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author = {Theodore Alexandrov and
Nina Golyandina and
Alexander V. Spirov},
title = {Singular Spectrum Analysis of Gene Expression Profiles of Early \emph{Drosophila
embryo}: Exponential-in-Distance Patterns},
journal = {J. Electr. Comput. Eng.},
volume = {2008},
year = {2008}
}
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author = {Li Teng and
Laiwan Chan},
title = {Discovering Distinct Patterns in Gene Expression Profiles},
journal = {J. Integr. Bioinform.},
volume = {5},
number = {2},
year = {2008}
}
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author = {Leehod Baruch and
Shalev Itzkovitz and
Michal Golan{-}Mashiach and
Ehud Shapiro and
Eran Segal},
title = {Using Expression Profiles of \emph{Caenorhabditis elegans} Neurons
To Identify Genes That Mediate Synaptic Connectivity},
journal = {PLoS Comput. Biol.},
volume = {4},
number = {7},
year = {2008}
}
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author = {Eriko Mizutani and
Jun Sese},
title = {{GOMA:} Web utility for direct finding of enriched Gene Ontology terms
from gene expression profile},
booktitle = {{BIBE}},
pages = {1--6},
publisher = {{IEEE}},
year = {2008}
}
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author = {Siyuan Ren and
Zoran Obradovic},
title = {Improvement of Survival Prediction from Gene Expression Profiles by
Mining of Prior Knowledge},
booktitle = {{BIBM}},
pages = {372--375},
publisher = {{IEEE} Computer Society},
year = {2008}
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author = {Fang{-}Xiang Wu},
title = {Detecting Significantly Expressed Genes from Their Time-Course Expression
Profiles and Its Validation},
booktitle = {{BIBM}},
pages = {170--175},
publisher = {{IEEE} Computer Society},
year = {2008}
}
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author = {Nan Mei and
Mugimane G. Manjanatha and
Mizuo Azuma and
Lea P. McDaniel and
Stacey L. Dial and
Jo Tseng and
Wayne Liao and
Lei Guo},
title = {Liver Gene Expression Profile of Mice Treated with Acrylamide in Drinking
Water},
booktitle = {{BIOCOMP}},
pages = {131--137},
publisher = {{CSREA} Press},
year = {2008}
}
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author = {Edward Salinas and
Amitava Karmaker},
title = {Analysis of Correlations between Genes and Triads of Transcription
Factors Using Microarray Expression Profiles},
booktitle = {{BIOCOMP}},
pages = {170--174},
publisher = {{CSREA} Press},
year = {2008}
}
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author = {Hong Qin and
Li Yang},
title = {Detection of Changes in Transitive Associations by Shortest-path Analysis
of Protein Interaction Networks Integrated with Gene Expression Profiles},
booktitle = {{BMEI} {(1)}},
pages = {418--423},
publisher = {{IEEE} Computer Society},
year = {2008}
}
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author = {Hui{-}Ling Huang and
Kuan{-}Wei Chen and
Shinn{-}Jang Ho and
Shinn{-}Ying Ho},
title = {Inferring S-system models of genetic networks from a time-series real
data set of gene expression profiles},
booktitle = {{IEEE} Congress on Evolutionary Computation},
pages = {2788--2793},
publisher = {{IEEE}},
year = {2008}
}
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author = {Xiaogang Ruan and
Jinlian Wang and
Hui Li and
Xiaoming Li},
title = {Study of tumor molecular diagnosis model based on artificial neural
network with gene expression profile},
booktitle = {{IEEE} Congress on Evolutionary Computation},
pages = {1051--1056},
publisher = {{IEEE}},
year = {2008}
}
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author = {Alfredo Benso and
Stefano Di Carlo and
Gianfranco Politano and
Luca Sterpone},
title = {A graph-based representation of Gene Expression profiles in {DNA}
microarrays},
booktitle = {{CIBCB}},
pages = {75--82},
publisher = {{IEEE}},
year = {2008}
}
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author = {Jinmao Wei and
Xin{-}Bin Yang and
Shuqin Wang and
Li Gu},
title = {A Novel Rough Hypercuboid Method for Classifying Cancers Based on
Gene Expression Profiles},
booktitle = {{FSKD} {(2)}},
pages = {262--266},
publisher = {{IEEE} Computer Society},
year = {2008}
}
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author = {Cristina Rubio{-}Escudero and
Francisco Mart{\'{\i}}nez{-}{\'{A}}lvarez and
Roc{\'{\i}}o Romero{-}Z{\'{a}}liz and
Igor Zwir},
title = {Classification of Gene Expression Profiles: Comparison of K-means
and Expectation Maximization Algorithms},
booktitle = {{HIS}},
pages = {831--836},
publisher = {{IEEE} Computer Society},
year = {2008}
}
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author = {Jyotsna Kasturi and
Raj Acharya},
title = {A new information-theoretic dissimilarity for clustering time-dependent
gene expression profiles modeled withradial basis functions},
booktitle = {{IJCNN}},
pages = {2857--2864},
publisher = {{IEEE}},
year = {2008}
}
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author = {Radhakrishnan Nagarajan and
Meenakshi Upreti and
Mariofanna G. Milanova},
title = {Identifying Non-random Patterns from Gene Expression Profiles},
booktitle = {{PRIB}},
series = {Lecture Notes in Computer Science},
volume = {5265},
pages = {299--310},
publisher = {Springer},
year = {2008}
}
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author = {Liviu Badea},
title = {Extracting Gene Expression Profiles Common to Colon and Pancreatic
Adenocarcinoma Using Simultaneous Nonnegative Matrix Factorization},
booktitle = {Pacific Symposium on Biocomputing},
pages = {267--278},
publisher = {World Scientific},
year = {2008}
}
@inproceedings{DBLP:conf/sac/ShaoYN08,
author = {Haifeng Shao and
Bei Yu and
Joseph H. Nadeau},
title = {Strangeness-based feature weighting and classification of gene expression
profiles},
booktitle = {{SAC}},
pages = {1292--1296},
publisher = {{ACM}},
year = {2008}
}
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author = {Alexandros Kanterakis and
Dimitris Kafetzopoulos and
Vassilis Moustakis and
George Potamias},
title = {Mining Gene Expression Profiles and Gene Regulatory Networks: Identification
of Phenotype-Specific Molecular Mechanisms},
booktitle = {{SETN}},
series = {Lecture Notes in Computer Science},
volume = {5138},
pages = {97--109},
publisher = {Springer},
year = {2008}
}
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author = {Shenggang Li and
Miguel A. Andrade{-}Navarro and
David Sankoff},
title = {A Customized Class of Functions for Modeling and Clustering Gene Expression
Profiles in Embryonic Stem Cells},
booktitle = {{BSB}},
series = {Lecture Notes in Computer Science},
volume = {5167},
pages = {92--103},
publisher = {Springer},
year = {2008}
}
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author = {{\'{A}}ngela Blanco and
Manuel Mart{\'{\i}}n{-}Merino and
Javier De Las Rivas},
title = {Ensemble of Support Vector Machines to Improve the Cancer Class Prediction
Based on the Gene Expression Profiles},
booktitle = {Innovations in Hybrid Intelligent Systems},
series = {Advances in Soft Computing},
volume = {44},
pages = {393--400},
publisher = {Springer},
year = {2008}
}
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author = {Attila Gyenesei and
Ulrich Wagner and
Simon Barkow{-}Oesterreicher and
Etzard Stolte and
Ralph Schlapbach},
title = {Mining co-regulated gene profiles for the detection of functional
associations in gene expression data},
journal = {Bioinform.},
volume = {23},
number = {15},
pages = {1927--1935},
year = {2007}
}
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author = {Dorothy S. V. Wong and
Frederick K. Wong and
Graham R. Wood},
title = {A multi-stage approach to clustering and imputation of gene expression
profiles},
journal = {Bioinform.},
volume = {23},
number = {8},
pages = {998--1005},
year = {2007}
}
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author = {{\'{A}}ngela Blanco and
Manuel Mart{\'{\i}}n{-}Merino and
Javier De Las Rivas},
title = {Combining dissimilarity based classifiers for cancer prediction using
gene expression profiles},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-8}},
year = {2007}
}
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author = {Lei Guo and
Nan Mei and
Stacey L. Dial and
James C. Fuscoe and
Tao Chen},
title = {Comparison of gene expression profiles altered by comfrey and riddelliine
in rat liver},
journal = {{BMC} Bioinform.},
volume = {8},
number = {{S-7}},
year = {2007}
}
@article{DBLP:journals/bmcbi/KimZJCLFH07,
author = {Kyungpil Kim and
Shibo Zhang and
Keni Jiang and
Li Cai and
In{-}Beum Lee and
Lewis J. Feldman and
Haiyan Huang},
title = {Measuring similarities between gene expression profiles through new
data transformations},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007}
}
@article{DBLP:journals/bmcbi/PittelkowW07,
author = {Yvonne E. Pittelkow and
Susan R. Wilson},
title = {h-Profile plots for the discovery and exploration of patterns in gene
expression data with an application to time course data},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007}
}
@article{DBLP:journals/bmcbi/SupperSWHZ07,
author = {Jochen Supper and
Martin Strauch and
Dierk Wanke and
Klaus Harter and
Andreas Zell},
title = {{EDISA:} extracting biclusters from multiple time-series of gene expression
profiles},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007}
}
@article{DBLP:journals/bmcsb/LiSYMNRHC07,
author = {Zheng Li and
Shireesh Srivastava and
Xuerui Yang and
Sheenu Mittal and
Paul Norton and
James H. Resau and
Brian B. Haab and
Christina Chan},
title = {A hierarchical approach employing metabolic and gene expression profiles
to identify the pathways that confer cytotoxicity in HepG2 cells},
journal = {{BMC} Syst. Biol.},
volume = {1},
pages = {21},
year = {2007}
}
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author = {Shinuk Kim and
Junil Kim and
Kwang{-}Hyun Cho},
title = {Inferring gene regulatory networks from temporal expression profiles
under time-delay and noise},
journal = {Comput. Biol. Chem.},
volume = {31},
number = {4},
pages = {239--245},
year = {2007}
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author = {Musa H. Asyali},
title = {Gene expression profile class prediction using linear Bayesian classifiers},
journal = {Comput. Biol. Medicine},
volume = {37},
number = {12},
pages = {1690--1699},
year = {2007}
}
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author = {Faming Liang},
title = {Use of SVD-based probit transformation in clustering gene expression
profiles},
journal = {Comput. Stat. Data Anal.},
volume = {51},
number = {12},
pages = {6355--6366},
year = {2007}
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author = {Sachiyo Aburatani and
Fuyan Sun and
Shigeru Saito and
Masao Honda and
Shuichi Kaneko and
Katsuhisa Horimoto},
title = {Gene Systems Network Inferred from Expression Profiles in Hepatocellular
Carcinogenesis by Graphical Gaussian Model},
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volume = {2007},
year = {2007}
}
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author = {Naftali Kaminski and
Ziv Bar{-}Joseph},
title = {A Patient-Gene Model for Temporal Expression Profiles in Clinical
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volume = {14},
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pages = {324--338},
year = {2007}
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author = {Amitava Karmaker and
Kihoon Yoon and
Mark Doderer and
Russell Kruzelock and
Stephen Kwek},
title = {Identifying Transcription Regulatory Elements in the Human and Mouse
Genomes Using Tissue-specific Gene Expression Profiles},
journal = {J. Integr. Bioinform.},
volume = {4},
number = {2},
year = {2007}
}
@article{DBLP:journals/jifs/ParkC07,
author = {Han{-}Saem Park and
Sung{-}Bae Cho},
title = {Evolutionary fuzzy cluster analysis with Bayesian validation of gene
expression profiles},
journal = {J. Intell. Fuzzy Syst.},
volume = {18},
number = {6},
pages = {543--559},
year = {2007}
}
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author = {Jingyu Hou and
Wei Shi and
Gang Li and
Wanlei Zhou},
title = {An effective non-parametric method for globally clustering genes from
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journal = {Medical Biol. Eng. Comput.},
volume = {45},
number = {12},
pages = {1175--1185},
year = {2007}
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author = {Helen E. Parkinson and
Misha Kapushesky and
Mohammadreza Shojatalab and
Niran Abeygunawardena and
Richard Coulson and
Anna Farne and
Ele Holloway and
Nikolay Kolesnykov and
P. Lilja and
Margus Lukk and
Roby Mani and
Tim F. Rayner and
Anjan Sharma and
E. William and
Ugis Sarkans and
Alvis Brazma},
title = {ArrayExpress - a public database of microarray experiments and gene
expression profiles},
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volume = {35},
number = {Database-Issue},
pages = {747--750},
year = {2007}
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author = {Sebastiano Cavallaro},
title = {Neuronal Apoptosis Revealed by Genomic Analysis: Integrating Gene
Expression Profiles with Functional Information},
journal = {Neuroinformatics},
volume = {5},
number = {2},
pages = {115--126},
year = {2007}
}
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author = {Yili Chen and
Thomas W. Blackwell and
Ji Chen and
Jing Gao and
Angel W. Lee and
David J. States},
title = {Integration of Genome and Chromatin Structure with Gene Expression
Profiles To Predict c-\emph{MYC} Recognition Site Binding and Function},
journal = {PLoS Comput. Biol.},
volume = {3},
number = {4},
year = {2007}
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Naisyin Wang},
title = {Dynamic agglomerative clustering of gene expression profiles},
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volume = {28},
number = {9},
pages = {1062--1076},
year = {2007}
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author = {Shinn{-}Ying Ho and
Chih{-}Hung Hsieh and
Fu{-}Chieh Yu and
Hui{-}Ling Huang},
title = {An Intelligent Two-Stage Evolutionary Algorithm for Dynamic Pathway
Identification From Gene Expression Profiles},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {4},
number = {4},
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year = {2007}
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author = {Alberto Casagrande and
Kevin Casey and
Rachele Falchi and
Carla Piazza and
Benedetto Ruperti and
Giannina Vizzotto and
Bud Mishra},
title = {Translating Time-Course Gene Expression Profiles into Semi-algebraic
Hybrid Automata Via Dimensionality Reduction},
booktitle = {{AB}},
series = {Lecture Notes in Computer Science},
volume = {4545},
pages = {51--65},
publisher = {Springer},
year = {2007}
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author = {Sheehyun Kim and
Dongsup Kim},
title = {Inference of Gene Regulatory Networks Using Time Sliding Comparison
and Transcriptional Lagging Time from Time Series Gene Expression
Profiles},
booktitle = {{BIBE}},
pages = {1035--1040},
publisher = {{IEEE} Computer Society},
year = {2007}
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author = {Brandon J. Smith and
Bruce R. Southey and
Sandra L. Rodriguez{-}Zas},
title = {Smoothing Spline Mixed Effects Modeling of Multifactorial Gene Expression
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booktitle = {{BIBM}},
pages = {325--332},
publisher = {{IEEE} Computer Society},
year = {2007}
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author = {Amitava Karmaker and
Stephen Harris and
Stephen Kwek},
title = {Identification of cis-Regulatory Elements from Cross-Genome Comparison
and Gene Expression Profile Analysis},
booktitle = {{BIOCOMP}},
pages = {31--36},
publisher = {{CSREA} Press},
year = {2007}
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author = {Yasubumi Sakakibara and
Takashi Yokomori and
Satoshi Kobayashi and
Akira Suyama},
title = {Probabilistic Inference in Test Tube and its Application to Gene Expression
Profiles},
booktitle = {Formal Models, Languages and Applications},
series = {Series in Machine Perception and Artificial Intelligence},
volume = {66},
pages = {304--319},
publisher = {World Scientific},
year = {2007}
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author = {Shulin Wang and
Huowang Chen and
Shutao Li},
title = {Gene Selection Using Neighborhood Rough Set from Gene Expression Profiles},
booktitle = {{CIS}},
pages = {959--963},
publisher = {{IEEE} Computer Society},
year = {2007}
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author = {Shulin Wang and
Huowang Chen and
Shutao Li and
Dingxing Zhang},
title = {Feature Extraction from Tumor Gene Expression Profiles Using {DCT}
and {DFT}},
booktitle = {{EPIA} Workshops},
series = {Lecture Notes in Computer Science},
volume = {4874},
pages = {485--496},
publisher = {Springer},
year = {2007}
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author = {Hee{-}Jeong Jin and
Ji{-}Yeon Lee and
Hwan{-}Gue Cho},
title = {Detecting Regulator-Target Gene Pairs from Expression Profile of Microarray},
booktitle = {{FBIT}},
pages = {199--204},
publisher = {{IEEE} Computer Society},
year = {2007}
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author = {Fang{-}Xiang Wu},
title = {Significance Analysis of Time-Course Gene Expression Profiles},
booktitle = {{ISBRA}},
series = {Lecture Notes in Computer Science},
volume = {4463},
pages = {13--24},
publisher = {Springer},
year = {2007}
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author = {Amitava Karmaker and
Mark Doderer and
Stephen Harris and
Stephen Kwek},
title = {Discovery of Transcription Factors Using Protein Subcellular Localization
Prediction and Gene Expression Profile Analysis},
booktitle = {{MLMTA}},
pages = {65--71},
publisher = {{CSREA} Press},
year = {2007}
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author = {Jo{\"{e}}l R. Pradines and
Vlado Danc{\'{\i}}k and
Alan Ruttenberg and
Victor Farutin},
title = {Connectedness Profiles in Protein Networks for the Analysis of Gene
Expression Data},
booktitle = {{RECOMB}},
series = {Lecture Notes in Computer Science},
volume = {4453},
pages = {296--310},
publisher = {Springer},
year = {2007}
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author = {Nasimul Noman and
Hitoshi Iba},
title = {Inferring Regulations in a Genomic Network from Gene Expression Profiles},
booktitle = {Analysis of Biological Data: {A} Soft Computing Approach},
series = {Science, Engineering, and Biology Informatics},
volume = {3},
pages = {205--229},
publisher = {World Scientific},
year = {2007}
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author = {Mukesh Bansal and
Giusy Della Gatta and
Diego di Bernardo},
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from time course gene expression profiles},
journal = {Bioinform.},
volume = {22},
number = {7},
pages = {815--822},
year = {2006}
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author = {Ljubomir J. Buturovic},
title = {{PCP:} a program for supervised classification of gene expression
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journal = {Bioinform.},
volume = {22},
number = {2},
pages = {245--247},
year = {2006}
}
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author = {Xiangdong Liu and
Siva Sivaganesan and
Ka Yee Yeung and
Junhai Guo and
Roger Eugene Bumgarner and
Mario Medvedovic},
title = {Context-specific infinite mixtures for clustering gene expression
profiles across diverse microarray dataset},
journal = {Bioinform.},
volume = {22},
number = {14},
pages = {1737--1744},
year = {2006}
}
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author = {Shu{-}Kay Ng and
Geoffrey J. McLachlan and
Kui Wang and
Liat Ben{-}Tovim Jones and
S.{-}W. Ng},
title = {A Mixture model with random-effects components for clustering correlated
gene-expression profiles},
journal = {Bioinform.},
volume = {22},
number = {14},
pages = {1745--1752},
year = {2006}
}
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author = {Carlos Prieto and
M. J. Rivas and
J. M. S{\'{a}}nchez and
Jes{\'{u}}s L{\'{o}}pez{-}Fidalgo and
Javier De Las Rivas},
title = {Algorithm to find gene expression profiles of deregulation and identify
families of disease-altered genes},
journal = {Bioinform.},
volume = {22},
number = {9},
pages = {1103--1110},
year = {2006}
}
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author = {Yongxi Tan and
Leming M. Shi and
Saber M. Hussain and
Jun Xu and
Weida Tong and
John M. Frazier and
Charles Wang},
title = {Integrating time-course microarray gene expression profiles with cytotoxicity
for identification of biomarkers in primary rat hepatocytes exposed
to cadmium},
journal = {Bioinform.},
volume = {22},
number = {1},
pages = {77--87},
year = {2006}
}
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author = {Dong Wang and
Yingli Lv and
Zheng Guo and
Xia Li and
Yanhui Li and
Jing Zhu and
Da Yang and
Jianzhen Xu and
Chenguang Wang and
Shaoqi Rao and
Baofeng Yang},
title = {Effects of replacing the unreliable cDNA microarray measurements on
the disease classification based on gene expression profiles and functional
modules},
journal = {Bioinform.},
volume = {22},
number = {23},
pages = {2883--2889},
year = {2006}
}
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author = {Ryo Yoshida and
Tomoyuki Higuchi and
Seiya Imoto and
Satoru Miyano},
title = {ArrayCluster: an analytic tool for clustering, data visualization
and module finder on gene expression profiles},
journal = {Bioinform.},
volume = {22},
number = {12},
pages = {1538--1539},
year = {2006}
}
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author = {Tao Chen and
Lei Guo and
Lu Zhang and
Leming M. Shi and
Hong Fang and
Yongming Sun and
James C. Fuscoe and
Nan Mei},
title = {Gene Expression Profiles Distinguish the Carcinogenic Effects of Aristolochic
Acid in Target (Kidney) and Non-target (Liver) Tissues in Rats},
journal = {{BMC} Bioinform.},
volume = {7},
number = {{S-2}},
year = {2006}
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author = {Jason M. Doherty and
Lynn K. Carmichael and
Jason C. Mills},
title = {GOurmet: {A} tool for quantitative comparison and visualization of
gene expression profiles based on gene ontology {(GO)} distributions},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {151},
year = {2006}
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author = {Rachel I. M. van Haaften and
Blanche Schroen and
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Arie van Erk and
Jacques J. M. Debets and
Hubert J. M. Smeets and
Jos F. M. Smits and
Arthur van den Wijngaard and
Yigal M. Pinto and
Chris T. A. Evelo},
title = {Biologically relevant effects of mRNA amplification on gene expression
profiles},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {200},
year = {2006}
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journal = {{BMC} Bioinform.},
volume = {7},
pages = {193},
year = {2006}
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Maarten A. Bijl and
Ruud Delwel and
Sebastiaan Horsman and
Michael J. Moorhouse and
Peter J. van der Spek and
Bob L{\"{o}}wenberg and
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title = {HeatMapper: powerful combined visualization of gene expression profile
correlations, genotypes, phenotypes and sample characteristics},
journal = {{BMC} Bioinform.},
volume = {7},
pages = {337},
year = {2006}
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volume = {2},
number = {3},
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Luis Rueda},
title = {A New Profile Alignment Method for Clustering Gene Expression Data},
booktitle = {Canadian {AI}},
series = {Lecture Notes in Computer Science},
volume = {4013},
pages = {86--97},
publisher = {Springer},
year = {2006}
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Wolfgang Lindner and
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title = {Learning and Feature Selection Using the Set Covering Machine with
Data-Dependent Rays on Gene Expression Profiles},
booktitle = {{ANNPR}},
series = {Lecture Notes in Computer Science},
volume = {4087},
pages = {286--297},
publisher = {Springer},
year = {2006}
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Yanchun Liang and
Wei Xiong and
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title = {Selection for Feature Gene Subset in Microarray Expression Profiles
Based on an Improved Genetic Algorithm},
booktitle = {Australian Conference on Artificial Intelligence},
series = {Lecture Notes in Computer Science},
volume = {4304},
pages = {161--169},
publisher = {Springer},
year = {2006}
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author = {Nasimul Noman and
Hitoshi Iba},
title = {On the Reconstruction of Gene Regulatory Networks from Noisy Expression
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booktitle = {{IEEE} Congress on Evolutionary Computation},
pages = {2543--2550},
publisher = {{IEEE}},
year = {2006}
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author = {Hisham Al{-}Mubaid and
Noushin Ghaffari},
title = {Identifying the most significant genes from gene expression profiles
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booktitle = {GrC},
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publisher = {{IEEE}},
year = {2006}
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Ying Lu and
Anthony K. H. Tung and
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title = {Mining Shifting-and-Scaling Co-Regulation Patterns on Gene Expression
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booktitle = {{ICDE}},
pages = {89},
publisher = {{IEEE} Computer Society},
year = {2006}
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author = {Cristina Rubio{-}Escudero and
Coral del Val and
Oscar Cord{\'{o}}n and
Igor Zwir},
title = {Decision Making Association Rules for Recognition of Differential
Gene Expression Profiles},
booktitle = {{IDEAL}},
series = {Lecture Notes in Computer Science},
volume = {4224},
pages = {1137--1149},
publisher = {Springer},
year = {2006}
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Ji Wang and
Huowang Chen and
Wensheng Tang},
title = {The Classification of Tumor Using Gene Expression Profile Based on
Support Vector Machines and Factor Analysis},
booktitle = {{ISDA} {(2)}},
pages = {471--476},
publisher = {{IEEE} Computer Society},
year = {2006}
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author = {Elena J. Edelman and
Alessandro Porrello and
Justin Guinney and
Bala Balakumaran and
Andrea Bild and
Phillip G. Febbo and
Sayan Mukherjee},
title = {Analysis of sample set enrichment scores: assaying the enrichment
of sets of genes for individual samples in genome-wide expression
profiles},
booktitle = {{ISMB} (Supplement of Bioinformatics)},
pages = {122--116},
year = {2006}
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author = {Yuan (Alan) Qi and
Patrycja E. Missiuro and
Ashish Kapoor and
Craig P. Hunter and
Tommi S. Jaakkola and
David K. Gifford and
Hui Ge},
title = {Semi-supervised analysis of gene expression profiles for lineage-specific
development in the \emph{Caenorhabditis elegans} embryo},
booktitle = {{ISMB} (Supplement of Bioinformatics)},
pages = {417--423},
year = {2006}
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author = {Wei Xiong and
Chen Zhang and
Chunguang Zhou and
Yanchun Liang},
title = {Selection for Feature Gene Subset in Microarray Expression Profiles
Based on a Hybrid Algorithm Using {SVM} and {GA}},
booktitle = {{ISPA} Workshops},
series = {Lecture Notes in Computer Science},
volume = {4331},
pages = {637--647},
publisher = {Springer},
year = {2006}
}
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author = {Xin Jin and
Anbang Xu and
Rongfang Bie and
Ping Guo},
title = {Machine Learning Techniques and Chi-Square Feature Selection for Cancer
Classification Using {SAGE} Gene Expression Profiles},
booktitle = {BioDM},
series = {Lecture Notes in Computer Science},
volume = {3916},
pages = {106--115},
publisher = {Springer},
year = {2006}
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author = {Dae{-}Won Kim and
Bo{-}Yeong Kang},
title = {Iterative Clustering Analysis for Grouping Missing Data in Gene Expression
Profiles},
booktitle = {{PAKDD}},
series = {Lecture Notes in Computer Science},
volume = {3918},
pages = {129--138},
publisher = {Springer},
year = {2006}
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author = {Liviu Badea},
title = {Semantic Web Reasoning for Analyzing Gene Expression Profiles},
booktitle = {{PPSWR}},
series = {Lecture Notes in Computer Science},
volume = {4187},
pages = {78--89},
publisher = {Springer},
year = {2006}
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author = {Karsten M. Borgwardt and
S. V. N. Vishwanathan and
Hans{-}Peter Kriegel},
title = {Class Prediction from Time Series Gene Expression Profiles Using Dynamical
Systems Kernels},
booktitle = {Pacific Symposium on Biocomputing},
pages = {547--558},
publisher = {World Scientific},
year = {2006}
}
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author = {Seiya Imoto and
Yoshinori Tamada and
Hiromitsu Araki and
Kaori Yasuda and
Cristin G. Print and
Stephen D. Charnock{-}Jones and
Deborah Sanders and
Christopher J. Savoie and
Kousuke Tashiro and
Satoru Kuhara and
Satoru Miyano},
title = {Computational Strategy for Discovering Druggable Gene Networks from
Genome-Wide {RNA} Expression Profiles},
booktitle = {Pacific Symposium on Biocomputing},
pages = {559--571},
publisher = {World Scientific},
year = {2006}
}
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author = {Naftali Kaminski and
Ziv Bar{-}Joseph},
title = {A Patient-Gene Model for Temporal Expression Profiles in Clinical
Studies},
booktitle = {{RECOMB}},
series = {Lecture Notes in Computer Science},
volume = {3909},
pages = {69--82},
publisher = {Springer},
year = {2006}
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author = {Ling Wang and
Marco Ramoni and
Paola Sebastiani},
title = {Clustering Short Gene Expression Profiles},
booktitle = {{RECOMB}},
series = {Lecture Notes in Computer Science},
volume = {3909},
pages = {60--68},
publisher = {Springer},
year = {2006}
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author = {Vincent S. Tseng and
Yen{-}Lo Chen},
title = {An Effective Approach for Mining Time-Series Gene Expression Profile},
booktitle = {Foundations and Novel Approaches in Data Mining},
series = {Studies in Computational Intelligence},
volume = {9},
pages = {363--376},
publisher = {Springer},
year = {2006}
}
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author = {Nitin Bhardwaj and
Hui Lu},
title = {Correlation between gene expression profiles and protein-protein interactions
within and across genomes},
journal = {Bioinform.},
volume = {21},
number = {11},
pages = {2730--2738},
year = {2005}
}
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author = {Kavitha Bhasi and
Alan Forrest and
Murali Ramanathan},
title = {{SPLINDID:} a semi-parametric, model-based method for obtaining transcription
rates and gene regulation parameters from genomic and proteomic expression
profiles},
journal = {Bioinform.},
volume = {21},
number = {20},
pages = {3873--3879},
year = {2005}
}
@article{DBLP:journals/bioinformatics/CarauxP05,
author = {Gilles Caraux and
Sylvie Pinloche},
title = {PermutMatrix: a graphical environment to arrange gene expression profiles
in optimal linear order},
journal = {Bioinform.},
volume = {21},
number = {7},
pages = {1280--1281},
year = {2005}
}
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author = {Francisco R. Pinto and
L. Ashley Cowart and
Yusuf A. Hannun and
B{\"{a}}rbel Rohrer and
Jonas S. Almeida},
title = {Local correlation of expression profiles with gene annotations-proof
of concept for a general conciliatory method},
journal = {Bioinform.},
volume = {21},
number = {7},
pages = {1037--1045},
year = {2005}
}
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author = {Aik Choon Tan and
Daniel Q. Naiman and
Lei Xu and
Raimond L. Winslow and
Donald Geman},
title = {Simple decision rules for classifying human cancers from gene expression
profiles},
journal = {Bioinform.},
volume = {21},
number = {20},
pages = {3896--3904},
year = {2005}
}
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author = {Zheng Guo and
Tianwen Zhang and
Xia Li and
Qi Wang and
Jianzhen Xu and
Hui Yu and
Jing Zhu and
Haiyun Wang and
Chenguang Wang and
Eric J. Topol and
Qing Wang and
Shaoqi Rao},
title = {Towards precise classification of cancers based on robust gene functional
expression profiles},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {58},
year = {2005}
}
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author = {Pingzhao Hu and
Celia M. T. Greenwood and
Joseph Beyene},
title = {Integrative analysis of multiple gene expression profiles with quality-adjusted
effect size models},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {128},
year = {2005}
}
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author = {Xiaohong Huang and
Wei Pan and
Suzanne Grindle and
Xinqiang Han and
Yingjie Chen and
Soon J. Park and
Leslie W. Miller and
Jennifer Hall},
title = {A comparative study of discriminating human heart failure etiology
using gene expression profiles},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {205},
year = {2005}
}
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author = {Daijin Ko and
Wanyan Xu and
Brad Windle},
title = {Gene function classification using {NCI-60} cell line gene expression
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volume = {29},
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pages = {412--419},
year = {2005}
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author = {Michihiro Kuramochi and
George Karypis},
title = {Gene Classification Using Expression Profiles: {A} Feasibility Study},
journal = {Int. J. Artif. Intell. Tools},
volume = {14},
number = {4},
pages = {641--660},
year = {2005}
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Haixun Wang and
Wei Wang and
Philip S. Yu},
title = {An Improved Biclustering Method for Analyzing Gene Expression Profiles},
journal = {Int. J. Artif. Intell. Tools},
volume = {14},
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pages = {771--790},
year = {2005}
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author = {Lucia Sacchi and
Riccardo Bellazzi and
Cristiana Larizza and
Paolo Magni and
Tomaz Curk and
Uros Petrovic and
Blaz Zupan},
title = {TA-clustering: Cluster analysis of gene expression profiles through
Temporal Abstractions},
journal = {Int. J. Medical Informatics},
volume = {74},
number = {7-8},
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year = {2005}
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Brian Sturgeon and
Ian Bradbury and
C. Stephen Downes and
Werner Dubitzky},
title = {Survival Trees for Analyzing Clinical Outcome in Lung Adenocarcinomas
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volume = {12},
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year = {2005}
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Richard G. Brereton},
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journal = {J. Chem. Inf. Model.},
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pages = {1392--1401},
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Kousuke Goto and
Shigeru Saito and
Hiroyuki Toh and
Katsuhisa Horimoto},
title = {{ASIAN:} a web server for inferring a regulatory network framework
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journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {659--664},
year = {2005}
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Barrett C. Foat and
Daniel J. Vis and
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Harmen J. Bussemaker},
title = {T-profiler: scoring the activity of predefined groups of genes using
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journal = {Nucleic Acids Res.},
volume = {33},
number = {Web-Server-Issue},
pages = {592--595},
year = {2005}
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author = {Alberto D. Pascual{-}Montano and
Francisco Tirado and
Pedro Carmona{-}Saez and
Jos{\'{e}} Mar{\'{\i}}a Carazo and
Roberto D. Pascual{-}Marqui},
title = {Two-way clustering of gene expression profiles by sparse matrix factorization},
booktitle = {{CSB} Workshops},
pages = {103--104},
publisher = {{IEEE} Computer Society},
year = {2005}
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author = {C. Vogl and
F{\'{a}}tima S{\'{a}}nchez{-}Cabo and
Gernot Stocker and
Simon J. Hubbard and
Olaf Wolkenhauer and
Zlatko Trajanoski},
title = {A fully Bayesian model to cluster gene-expression profiles},
booktitle = {{ECCB/JBI}},
pages = {136},
year = {2005}
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author = {Sali Lv and
Qianghu Wang and
Guangmei Zhang and
Fengxia Wen and
Zhenzhen Wang and
Xia Li},
title = {A New Method for Gene Functional Prediction Based on Homologous Expression
Profile},
booktitle = {{FSKD} {(2)}},
series = {Lecture Notes in Computer Science},
volume = {3614},
pages = {836--844},
publisher = {Springer},
year = {2005}
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author = {Weiqiang Wang and
Yanhong Zhou and
Ran Bi},
title = {Correlating Genes and Functions to Human Disease by Systematic Differential
Analysis of Expression Profiles},
booktitle = {{ICIC} {(2)}},
series = {Lecture Notes in Computer Science},
volume = {3645},
pages = {11--20},
publisher = {Springer},
year = {2005}
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author = {Ankur Kapil and
Ravindra D. Gudi and
Santosh B. Noronha},
title = {Projection and Fuzzy Classification Methods for Gene Expression Profile
Analysis},
booktitle = {{IICAI}},
pages = {2212--2230},
publisher = {{IICAI}},
year = {2005}
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author = {Shuanhu Wu and
Alan Wee{-}Chung Liew and
Hong Yan},
title = {OPTOC-Based Clustering Analysis of Gene Expression Profiles in Spectral
Space},
booktitle = {{ISNN} {(3)}},
series = {Lecture Notes in Computer Science},
volume = {3498},
pages = {709--718},
publisher = {Springer},
year = {2005}
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author = {Han{-}Saem Park and
Sung{-}Bae Cho},
title = {Evolutionary Clustering Algorithm with Knowledge-Based Evaluation
for Fuzzy Cluster Analysis of Gene Expression Profiles},
booktitle = {PReMI},
series = {Lecture Notes in Computer Science},
volume = {3776},
pages = {640--644},
publisher = {Springer},
year = {2005}
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author = {Koji Kyoda and
Kotaro Baba and
Shuichi Onami and
Hiroaki Kitano},
title = {{DBRF-MEGN} method: an algorithm for deducing minimum equivalent gene
networks from large-scale gene expression profiles of gene deletion
mutants},
journal = {Bioinform.},
volume = {20},
number = {16},
pages = {2662--2675},
year = {2004}
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author = {Feng Luo and
Latifur Khan and
Farokh B. Bastani and
I{-}Ling Yen and
Jizhong Zhou},
title = {A dynamically growing self-organizing tree {(DGSOT)} for hierarchical
clustering gene expression profiles},
journal = {Bioinform.},
volume = {20},
number = {16},
pages = {2605--2617},
year = {2004}
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author = {Jun Sese and
Yukinori Kurokawa and
Morito Monden and
Kikuya Kato and
Shinichi Morishita},
title = {Constrained clusters of gene expression profiles with pathological
features},
journal = {Bioinform.},
volume = {20},
number = {17},
pages = {3137--3145},
year = {2004}
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author = {Chun Tang and
Aidong Zhang and
Murali Ramanathan},
title = {{ESPD:} a pattern detection model underlying gene expression profiles},
journal = {Bioinform.},
volume = {20},
number = {6},
pages = {829--838},
year = {2004}
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author = {Maurizio Pellegrino and
Paolo Provero and
Lorenzo Silengo and
Ferdinando Di Cunto},
title = {{CLOE:} Identification of putative functional relationships among
genes by comparison of expression profiles between two species},
journal = {{BMC} Bioinform.},
volume = {5},
pages = {179},
year = {2004}
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title = {Classification of Gene Expression Profile Using Combinatory Method
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volume = {5},
number = {2},
pages = {145--156},
year = {2004}
}
@article{DBLP:journals/jbi/YipCNC04,
author = {Kevin Y. Yip and
David W. Cheung and
Michael K. Ng and
Kei{-}Hoi Cheung},
title = {Identifying projected clusters from gene expression profiles},
journal = {J. Biomed. Informatics},
volume = {37},
number = {5},
pages = {345--357},
year = {2004}
}
@article{DBLP:journals/jcb/DejoriS04,
author = {Math{\"{a}}us Dejori and
Martin Stetter},
title = {Identifying Interventional and Pathogenic Mechanisms by Generative
Inverse Modeling of Gene Expression Profiles},
journal = {J. Comput. Biol.},
volume = {11},
number = {6},
pages = {1135--1148},
year = {2004}
}
@article{DBLP:journals/nar/KapusheskyKCDIKKTSVB04,
author = {Misha Kapushesky and
Patrick Kemmeren and
Aed{\'{\i}}n C. Culhane and
Steffen Durinck and
Jan Ihmels and
Christine K{\"{o}}rner and
Meelis Kull and
Aurora Torrente and
Ugis Sarkans and
Jaak Vilo and
Alvis Brazma},
title = {Expression Profiler: next generation - an online platform for analysis
of microarray data},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {465--470},
year = {2004}
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@article{DBLP:journals/nar/VoliniaEFACG04,
author = {Stefano Volinia and
Rita Evangelisti and
Francesca Francioso and
Diego Arcelli and
Massimo Carella and
Paolo Gasparini},
title = {{GOAL:} automated Gene Ontology analysis of expression profiles},
journal = {Nucleic Acids Res.},
volume = {32},
number = {Web-Server-Issue},
pages = {492--499},
year = {2004}
}
@article{DBLP:journals/pnas/LinCHSA04,
author = {Kevin K. Lin and
Darya Chudova and
G. Wesley Hatfield and
Padhraic Smyth and
Bogi Andersen},
title = {Identification of hair cycle-associated genes from time-course gene
expression profile data by using replicate variance},
journal = {Proc. Natl. Acad. Sci. {USA}},
volume = {101},
number = {45},
pages = {15955--15960},
year = {2004}
}
@inproceedings{DBLP:conf/bibe/YipCNC04,
author = {Kevin Y. Yip and
David W. Cheung and
Michael K. Ng and
Kei{-}Hoi Cheung},
title = {Identifying Projected Clusters from Gene Expression Profiles},
booktitle = {{BIBE}},
pages = {259--266},
publisher = {{IEEE} Computer Society},
year = {2004}
}
@inproceedings{DBLP:conf/cec/SpeerSZ04,
author = {Nora Speer and
Christian Spieth and
Andreas Zell},
title = {A memetic co-clustering algorithm for gene expression profiles and
biological annotation},
booktitle = {{IEEE} Congress on Evolutionary Computation},
pages = {1631--1638},
publisher = {{IEEE}},
year = {2004}
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@inproceedings{DBLP:conf/cibcb/Seker04,
author = {Huseyin Seker},
title = {A multifuzzy filtering approach to reliable gene expression profile
analysis},
booktitle = {{CIBCB}},
pages = {37--40},
publisher = {{IEEE}},
year = {2004}
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@inproceedings{DBLP:conf/csb/LiuWY04,
author = {Jinze Liu and
Wei Wang and
Jiong Yang},
title = {Gene Ontology Friendly Biclustering of Expression Profiles},
booktitle = {{CSB}},
pages = {436--447},
publisher = {{IEEE} Computer Society},
year = {2004}
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@inproceedings{DBLP:conf/hicss/XueLS04,
author = {Rui Xue and
Jianying Li and
Dennis J. Streveler},
title = {Microarray Gene Expression Profile Data Mining Model for Clinical
Cancer Research},
booktitle = {{HICSS}},
publisher = {{IEEE} Computer Society},
year = {2004}
}
@inproceedings{DBLP:conf/his/RazaGGC04,
author = {Mansoor Raza and
Iqbal Gondal and
David G. Green and
Ross L. Coppel},
title = {Feature Selection and Classification of Gene Expression Profile in
Hereditary Breast Cancer},
booktitle = {{HIS}},
pages = {315--320},
publisher = {{IEEE} Computer Society},
year = {2004}
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author = {G. C. Tseng},
title = {A comparative review of gene clustering in expression profile},
booktitle = {{ICARCV}},
pages = {1320--1324},
publisher = {{IEEE}},
year = {2004}
}
@inproceedings{DBLP:conf/kelsi/TanasaLT04,
author = {Doru Tanasa and
Jes{\'{u}}s A. L{\'{o}}pez and
Brigitte Trousse},
title = {Extracting Sequential Patterns for Gene Regulatory Expressions Profiles},
booktitle = {{KELSI}},
series = {Lecture Notes in Computer Science},
volume = {3303},
pages = {46--57},
publisher = {Springer},
year = {2004}
}
@inproceedings{DBLP:conf/kes/ShinP04,
author = {Miyoung Shin and
Seon Hee Park},
title = {Cluster Analysis of Gene Expression Profiles Using Automatically Extracted
Seeds},
booktitle = {{KES}},
series = {Lecture Notes in Computer Science},
volume = {3215},
pages = {263--269},
publisher = {Springer},
year = {2004}
}
@inproceedings{DBLP:conf/pricai/ParkYC04,
author = {Han{-}Saem Park and
Si{-}Ho Yoo and
Sung{-}Bae Cho},
title = {A Fuzzy Clustering Algorithm for Analysis of Gene Expression Profiles},
booktitle = {{PRICAI}},
series = {Lecture Notes in Computer Science},
volume = {3157},
pages = {967--968},
publisher = {Springer},
year = {2004}
}
@inproceedings{DBLP:conf/setn/PotamiasKM04,
author = {George Potamias and
Lefteris Koumakis and
Vassilis Moustakis},
title = {Gene Selection via Discretized Gene-Expression Profiles and Greedy
Feature-Elimination},
booktitle = {{SETN}},
series = {Lecture Notes in Computer Science},
volume = {3025},
pages = {256--266},
publisher = {Springer},
year = {2004}
}
@inproceedings{DBLP:conf/snpd/GuoZRWYL04,
author = {Zheng Guo and
Tianwen Zhang and
Shaoqi Rao and
Qi Wang and
Hui Yu and
Xia Li},
title = {Classification of Cancer Types Based on Decision Tree Analysis of
Gene Function Expression Profiles},
booktitle = {{SNPD}},
pages = {167--173},
publisher = {{IEEE} Computer Society},
year = {2004}
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@phdthesis{DBLP:phd/de/Ernst2003,
author = {Jens Ernst},
title = {Similarity-based clustering algorithms for gene expression profiles},
school = {Technical University Munich},
year = {2003}
}
@phdthesis{DBLP:phd/it/DiCamillo03,
author = {Barbara Di Camillo},
title = {Modelling dynamic gene expression profiles},
school = {University of Padua, Italy},
year = {2003}
}
@article{DBLP:journals/artmed/PetersonR03,
author = {Carsten Peterson and
Markus Ringn{\'{e}}r},
title = {Analyzing tumor gene expression profiles},
journal = {Artif. Intell. Medicine},
volume = {28},
number = {1},
pages = {59--74},
year = {2003}
}
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author = {Gabriel S. Eichler and
Sui Huang and
Donald E. Ingber},
title = {Gene Expression Dynamics Inspector {(GEDI):} for integrative analysis
of expression profiles},
journal = {Bioinform.},
volume = {19},
number = {17},
pages = {2321--2322},
year = {2003}
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author = {Torgeir R. Hvidsten and
Astrid L{\ae}greid and
Henryk Jan Komorowski},
title = {Learning Rule-based Models of Biological Process from Gene Expression
Time Profiles Using Gene Ontology},
journal = {Bioinform.},
volume = {19},
number = {9},
pages = {1116--1123},
year = {2003}
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@article{DBLP:journals/bioinformatics/LiFX03,
author = {Wuju Li and
Ming Fan and
Momiao Xiong},
title = {SamCluster: An Integrated Scheme for Automatic Discovery of Sample
Classes Using Gene Expression Profile},
journal = {Bioinform.},
volume = {19},
number = {7},
pages = {811--817},
year = {2003}
}
@article{DBLP:journals/bioinformatics/LiLDYW03,
author = {Jinyan Li and
Huiqing Liu and
James R. Downing and
Allen Eng{-}Juh Yeoh and
Limsoon Wong},
title = {Simple rules underlying gene expression profiles of more than six
subtypes of acute lymphoblastic leukemia {(ALL)} patients},
journal = {Bioinform.},
volume = {19},
number = {1},
pages = {71--78},
year = {2003}
}
@article{DBLP:journals/bioinformatics/LiuM03,
author = {Xueli Liu and
Hans{-}Georg M{\"{u}}ller},
title = {Modes and clustering for time-warped gene expression profile data},
journal = {Bioinform.},
volume = {19},
number = {15},
pages = {1937--1944},
year = {2003}
}
@article{DBLP:journals/bioinformatics/ObaSTMMI03,
author = {Shigeyuki Oba and
Masa{-}aki Sato and
Ichiro Takemasa and
Morito Monden and
Ken{-}ichi Matsubara and
Shin Ishii},
title = {A Bayesian missing value estimation method for gene expression profile
data},
journal = {Bioinform.},
volume = {19},
number = {16},
pages = {2088--2096},
year = {2003}
}
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author = {Leif E. Peterson},
title = {Partitioning large-sample microarray-based gene expression profiles
using principal components analysis},
journal = {Comput. Methods Programs Biomed.},
volume = {70},
number = {2},
pages = {107--119},
year = {2003}
}
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author = {Sung{-}Bae Cho and
Hong{-}Hee Won},
title = {Data Mining For Gene Expression Profiles From Dna Microarray},
journal = {Int. J. Softw. Eng. Knowl. Eng.},
volume = {13},
number = {6},
pages = {593--608},
year = {2003}
}
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author = {Michael D. Radmacher and
Lisa M. McShane and
Richard M. Simon},
title = {A Paradigm for Class Prediction Using Gene Expression Profiles},
journal = {J. Comput. Biol.},
volume = {9},
number = {3},
pages = {505--511},
year = {2003}
}
@article{DBLP:journals/jise/HuangC03a,
author = {Ing{-}Jer Huang and
Dao{-}Zhen Chen},
title = {Mining Correlations of Human Gene Expression from Digital Gene Expression
Profiles},
journal = {J. Inf. Sci. Eng.},
volume = {19},
number = {6},
pages = {909--921},
year = {2003}
}
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author = {Habtom W. Ressom and
Dali Wang and
Padma Natarajan},
title = {Adaptive double self-organizing maps for clustering gene expression
profiles},
journal = {Neural Networks},
volume = {16},
number = {5-6},
pages = {633--640},
year = {2003}
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@inproceedings{DBLP:conf/cikm/TangZ03,
author = {Chun Tang and
Aidong Zhang},
title = {Mining multiple phenotype structures underlying gene expression profiles},
booktitle = {{CIKM}},
pages = {418--425},
publisher = {{ACM}},
year = {2003}
}
@inproceedings{DBLP:conf/csb/DuanLSD03,
author = {Zhong{-}Hui Duan and
Louis S. Liou and
Ting Shi and
Joseph A. DiDonato},
title = {Application of Singular Value Decomposition and Functional Clustering
to Analyzing Gene Expression Profiles of Renal Cell Carcinoma},
booktitle = {{CSB}},
pages = {392--393},
publisher = {{IEEE} Computer Society},
year = {2003}
}
@inproceedings{DBLP:conf/csb/Syeda-Mahmood03,
author = {Tanveer Fathima Syeda{-}Mahmood},
title = {Clustering Time-Varying Gene Expression Profiles using Scale-space
Signals},
booktitle = {{CSB}},
pages = {48--56},
publisher = {{IEEE} Computer Society},
year = {2003}
}
@inproceedings{DBLP:conf/kdd/YipCN03,
author = {Kevin Y. Yip and
David W. Cheung and
Michael K. Ng},
title = {A highly-usable projected clustering algorithm for gene expression
profiles},
booktitle = {{BIOKDD}},
pages = {41--48},
year = {2003}
}
@inproceedings{DBLP:conf/psb/LiL03,
author = {Hongzhe Li and
Yihui Luan},
title = {Kernel Cox Regression Models for Linking Gene Expression Profiles
to Censored Survival Data},
booktitle = {Pacific Symposium on Biocomputing},
pages = {65--76},
year = {2003}
}
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author = {Thomas D. Wu},
title = {Large-scale analysis of gene expression profiles},
journal = {Briefings Bioinform.},
volume = {3},
number = {1},
pages = {7--17},
year = {2002}
}
@article{DBLP:journals/bioinformatics/DodsonCSP02,
author = {J. M. Dodson and
P. T. Charles and
David A. Stenger and
Joseph J. Pancrazio},
title = {Quantitative assessment of filter-based cDNA microarrays: gene expression
profiles of human T-lymphoma cell lines},
journal = {Bioinform.},
volume = {18},
number = {7},
pages = {953--960},
year = {2002}
}
@article{DBLP:journals/bioinformatics/LiW02,
author = {Jinyan Li and
Limsoon Wong},
title = {Identifying good diagnostic gene groups from gene expression profiles
using the concept of emerging patterns},
journal = {Bioinform.},
volume = {18},
number = {5},
pages = {725--734},
year = {2002}
}
@article{DBLP:journals/bioinformatics/LiW02a,
author = {Jinyan Li and
Limsoon Wong},
title = {Identifying good diagnostic gene groups from gene expression profiles
using the concept of emerging patterns},
journal = {Bioinform.},
volume = {18},
number = {10},
pages = {1406--1407},
year = {2002}
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@article{DBLP:journals/bioinformatics/MedvedovicS02,
author = {Mario Medvedovic and
Siva Sivaganesan},
title = {Bayesian infinite mixture model based clustering of gene expression
profiles},
journal = {Bioinform.},
volume = {18},
number = {9},
pages = {1194--1206},
year = {2002}
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author = {Danh V. Nguyen and
David M. Rocke},
title = {Multi-class cancer classification via partial least squares with gene
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journal = {Bioinform.},
volume = {18},
number = {9},
pages = {1216--1226},
year = {2002}
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author = {Peter J. Park and
Atul J. Butte and
Isaac S. Kohane},
title = {Comparing expression profiles of genes with similar promoter regions},
journal = {Bioinform.},
volume = {18},
number = {12},
pages = {1576--1584},
year = {2002}
}
@article{DBLP:journals/bioinformatics/SmetMMTMM02,
author = {Frank De Smet and
Janick Mathys and
Kathleen Marchal and
Gert Thijs and
Bart De Moor and
Yves Moreau},
title = {Adaptive quality-based clustering of gene expression profiles},
journal = {Bioinform.},
volume = {18},
number = {5},
pages = {735--746},
year = {2002}
}
@article{DBLP:journals/bioinformatics/WujuM02,
author = {Wuju Li and
Momiao Xiong},
title = {Tclass: tumor classification system based on gene expression profile},
journal = {Bioinform.},
volume = {18},
number = {2},
pages = {325--326},
year = {2002}
}
@article{DBLP:journals/ijprai/Cho02,
author = {Sung{-}Bae Cho},
title = {Exploring Features and Classifiers to Classify Gene Expression Profiles
of Acute Leukemia},
journal = {Int. J. Pattern Recognit. Artif. Intell.},
volume = {16},
number = {7},
pages = {831--844},
year = {2002}
}
@article{DBLP:journals/isb/SpangBZMNW02,
author = {Rainer Spang and
Carrie Blanchette and
Harry Zuzan and
Jeffrey R. Marks and
Joseph Nevins and
Mike West},
title = {Prediction and uncertainty in the analysis of gene expression profiles},
journal = {Silico Biol.},
volume = {2},
number = {3},
pages = {369--381},
year = {2002}
}
@article{DBLP:journals/isci/WangG02,
author = {Yufeng Wang and
Xun Gu},
title = {Evolutionary and expression profiles of gene families crucial for
central nervous system development},
journal = {Inf. Sci.},
volume = {145},
number = {3-4},
pages = {215--223},
year = {2002}
}
@inproceedings{DBLP:conf/jcis/WangG02,
author = {Yufeng Wang and
Xun Gu},
title = {Evolutionary Analysis for Developmental Profiles of Gene Family Expression
in Central Nervous System},
booktitle = {{JCIS}},
pages = {1231--1236},
publisher = {{JCIS} / Association for Intelligent Machinery, Inc.},
year = {2002}
}
@inproceedings{DBLP:conf/ppsn/MerzZ02,
author = {Peter Merz and
Andreas Zell},
title = {Clustering Gene Expression Profiles with Memetic Algorithms},
booktitle = {{PPSN}},
series = {Lecture Notes in Computer Science},
volume = {2439},
pages = {811--820},
publisher = {Springer},
year = {2002}
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author = {Chris H. Q. Ding},
title = {Analysis of gene expression profiles: class discovery and leaf ordering},
booktitle = {{RECOMB}},
pages = {127--136},
publisher = {{ACM}},
year = {2002}
}
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author = {Katsuhisa Horimoto and
Hiroyuki Toh},
title = {Statistical estimation of cluster boundaries in gene expression profile
data},
journal = {Bioinform.},
volume = {17},
number = {12},
pages = {1143--1151},
year = {2001}
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author = {Alexander V. Lukashin and
Rainer Fuchs},
title = {Analysis of temporal gene expression profiles: clustering by simulated
annealing and determining the optimal number of clusters},
journal = {Bioinform.},
volume = {17},
number = {5},
pages = {405--414},
year = {2001}
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@inproceedings{DBLP:conf/bibe/KuramochiK01,
author = {Michihiro Kuramochi and
George Karypis},
title = {Gene Classification using Expression Profiles: {A} Feasibility Study},
booktitle = {{BIBE}},
pages = {191--200},
publisher = {{IEEE} Computer Society},
year = {2001}
}
@inproceedings{DBLP:conf/gcb/SpangBZMNW01,
author = {Rainer Spang and
Carrie Blanchette and
Harry Zuzan and
Jeffrey R. Marks and
Joseph Nevins and
Mike West},
title = {Prediction and uncertainty in the analysis of gene expression profiles},
booktitle = {German Conference on Bioinformatics},
pages = {102--111},
publisher = {German Research Center for Biotechnology},
year = {2001}
}
@inproceedings{DBLP:conf/ismb/ChiangBE01,
author = {Derek Y. Chiang and
Patrick O. Brown and
Michael B. Eisen},
title = {Visualizing associations between genome sequences and gene expression
data using genome-mean expression profiles},
booktitle = {{ISMB} (Supplement of Bioinformatics)},
pages = {49--55},
year = {2001}
}
@inproceedings{DBLP:conf/kdd/PavlidisTN01,
author = {Paul Pavlidis and
Christopher Tang and
William Stafford Noble},
title = {Classification of genes using probabilistic models of microarray expression
profiles},
booktitle = {{BIOKDD}},
pages = {15--21},
year = {2001}
}
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author = {Amir Ben{-}Dor and
Laurakay Bruhn and
Nir Friedman and
Iftach Nachman and
Mich{\`{e}}l Schummer and
Zohar Yakhini},
title = {Tissue Classification with Gene Expression Profiles},
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year = {2000}
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@inproceedings{DBLP:conf/recomb/Ben-DorBFNSY00,
author = {Amir Ben{-}Dor and
Laurakay Bruhn and
Nir Friedman and
Iftach Nachman and
Mich{\`{e}}l Schummer and
Zohar Yakhini},
title = {Tissue classification with gene expression profiles},
booktitle = {{RECOMB}},
pages = {54--64},
publisher = {{ACM}},
year = {2000}
}
@inproceedings{DBLP:conf/gcb/FellenbergM99,
author = {Matthias Fellenberg and
Hans{-}Werner Mewes},
title = {Interpreting Clusters of Gene Expression Profiles in Terms of Metabolic
Pathways},
booktitle = {German Conference on Bioinformatics},
pages = {185--187},
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