Volume 27, Number 1, January 2011 Original Papers - Genome Analysis
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journals/bioinformatics/KimH11 Dong Seon Kim ,
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Identification of human-specific transcript variants induced by DNA insertions in the human genome. 14-21
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journals/bioinformatics/GevaS11 Guy Geva ,
Roded Sharan :
Identification of protein complexes from co-immunoprecipitation data. 111-117
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journals/bioinformatics/MartinBE11 Volume 27, Number 2, January 2011 Original Papers - Genome Analysis
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journals/bioinformatics/VigeliusLM11 Volume 27, Number 3, February 2011 Iscb
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journals/bioinformatics/IvanG11 Gábor Iván ,
Vince Grolmusz :
When the Web meets the cell: using personalized PageRank for analyzing protein interaction networks. 405-407
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journals/bioinformatics/SchwarzKZ11 Volume 27, Number 4, February 2011 Review Genome Analysis
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journals/bioinformatics/JensenP11 Paul A. Jensen ,
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Functional integration of a metabolic network model and expression data without arbitrary thresholding. 541-547
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Automated analysis of information processing, kinetic independence and modular architecture in biochemical networks using MIDIA. 584-586
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journals/bioinformatics/Schliep11 Volume 27, Number 5, March 2011 Original Papers - Genome Analysis
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journals/bioinformatics/AbyzovG11 Alexej Abyzov ,
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AGE: defining breakpoints of genomic structural variants at single-nucleotide resolution, through optimal alignments with gap excision. 595-603
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journals/bioinformatics/ChenXHLWMJBTLCL11 Xiujie Chen ,
Jiankai Xu ,
Bangqing Huang ,
Jin Li ,
Xin Wu ,
Ling Ma ,
Xiaodong Jia ,
Xiusen Bian ,
Fujian Tan ,
Lei Liu ,
Sheng Chen ,
Xia Li :
A sub-pathway-based approach for identifying drug response principal network. 649-654
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journals/bioinformatics/GrzegorczykH11 Marco Grzegorczyk ,
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Improvements in the reconstruction of time-varying gene regulatory networks: dynamic programming and regularization by information sharing among genes. 693-699
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Tabix: fast retrieval of sequence features from generic TAB-delimited files. 718-719
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journals/bioinformatics/YuLNCMGTLBHN11 Tommy Yu ,
Catherine M. Lloyd ,
David P. Nickerson ,
Mike T. Cooling ,
Andrew K. Miller ,
Alan Garny ,
Jonna R. Terkildsen ,
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The Physiome Model Repository 2. 743-744
Volume 27, Number 6, March 2011 Discovery Note - Data and Text Mining
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journals/bioinformatics/JefferysG11 Stuart R. Jefferys ,
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Baking a mass-spectrometry data PIE with McMC and simulated annealing: predicting protein post-translational modifications from integrated top-down and bottom-up data. 844-852
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journals/bioinformatics/TongCK11 Volume 27, Number 7, April 2011 Discovery Note - Genome Analysis
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journals/bioinformatics/LuckT11 Katja Luck ,
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Phage display can select over-hydrophobic sequences that may impair prediction of natural domain-peptide interactions. 899-902
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Automated analysis of biological oscillator models using mode decomposition. 961-967
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journals/bioinformatics/Zi11 Zhike Zi :
SBML-PET-MPI: a parallel parameter estimation tool for Systems Biology Markup Language based models. 1028-1029
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journals/bioinformatics/ZhangTJLSMCHXHW11 Bai Zhang ,
Ye Tian ,
Lu Jin ,
Huai Li ,
Ie-Ming Shih ,
Subha Madhavan ,
Robert Clarke ,
Eric P. Hoffman ,
Jianhua Xuan ,
Leena Hilakivi-Clarke ,
Yue Joseph Wang :
DDN: a caBIG® analytical tool for differential network analysis. 1036-1038
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journals/bioinformatics/Malde11 Ketil Malde :
Flower: extracting information from pyrosequencing data. 1041-1042
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journals/bioinformatics/WinterWT11 Volume 27, Number 8, April 2011 Original Papers - Genome Analysis
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journals/bioinformatics/Halper-StrombergFRSJCHHJDDSBPSI11 Eitan Halper-Stromberg ,
Laurence Frelin ,
Ingo Ruczinski ,
Robert B. Scharpf ,
Chunfa Jie ,
Benilton Carvalho ,
Haiping Hao ,
Kurt N. Hetrick ,
Anne Jedlicka ,
Amanda Dziedzic ,
Kim Doheny ,
Alan F. Scott ,
Steve Baylin ,
Jonathan Pevsner ,
Forrest Spencer ,
Rafael A. Irizarry :
Performance assessment of copy number microarray platforms using a spike-in experiment. 1052-1060
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journals/bioinformatics/JeeRYLBZZFWWG11 Justin Jee ,
Joel S. Rozowsky ,
Kevin Y. Yip ,
Lucas Lochovsky ,
Robert D. Bjornson ,
Guoneng Zhong ,
Zhengdong D. Zhang ,
Yutao Fu ,
Jie Wang ,
Zhiping Weng ,
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ACT: aggregation and correlation toolbox for analyses of genome tracks. 1152-1154
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Improving SNP discovery by base alignment quality. 1157-1158
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SurvJamda: an R package to predict patients' survival and risk assessment using joint analysis of microarray gene expression data. 1168-1169
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journals/bioinformatics/AhmadSHSBDHKBBH11 Isthiaq Ahmad ,
Frank Suits ,
Berend Hoekman ,
Morris A. Swertz ,
Heorhiy Byelas ,
Martijn Dijkstra ,
Rob W. W. Hooft ,
Dmitry Katsubo ,
Bas van Breukelen ,
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A high-throughput processing service for retention time alignment of complex proteomics and metabolomics LC-MS data. 1176-1178
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journals/bioinformatics/KamentskyJFBLMLREC11 Lee Kamentsky ,
Thouis R. Jones ,
Adam Fraser ,
Mark-Anthony Bray ,
David J. Logan ,
Katherine L. Madden ,
Vebjorn Ljosa ,
Curtis Rueden ,
Kevin W. Eliceiri ,
Anne E. Carpenter :
Improved structure, function and compatibility for CellProfiler: modular high-throughput image analysis software. 1179-1180
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journals/bioinformatics/BaragattiP11 Volume 27, Number 9, May 2011 Original Papers - Genome Analysis
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Genetics and Population Analysis
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journals/bioinformatics/ExcoffierF11 Laurent Excoffier ,
Matthieu Foll :
fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios. 1332-1334
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journals/bioinformatics/AntaoH11
Systems Biology
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journals/bioinformatics/AlonsoJBVDICM11
Data and Text Mining
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Databases and Ontologies
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journals/bioinformatics/HayesKSLRPC11 Volume 27, Number 10, May 2011 Editorial
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journals/bioinformatics/KallioniemiWV11
Discovery Note - Sequence Analysis
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Original Papers - Sequence Analysis
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Phylogenetics
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Structural Bioinformatics
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Gene Expression
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journals/bioinformatics/JungBBB11
Genetics and Population Analysis
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journals/bioinformatics/CosgunLD11 Erdal Cosgun ,
Nita A. Limdi ,
Christine W. Duarte :
High-dimensional pharmacogenetic prediction of a continuous trait using machine learning techniques with application to warfarin dose prediction in African Americans. 1384-1389
Systems Biology
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journals/bioinformatics/SankarORGTSXH11
Data and Text Mining
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journals/bioinformatics/WangCKT11
Databases and Ontologies
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journals/bioinformatics/BoydHSFECDFGSTK11 Lauren Becnel Boyd ,
Scott P. Hunicke-Smith ,
Grace A. Stafford ,
Elaine T. Freund ,
Michele Ehlman ,
Uma Chandran ,
Robert Dennis ,
Anna T. Fernandez ,
Stephen Goldstein ,
David Steffen ,
Benjamin Tycko ,
Juli D. Klemm :
The caBIG® Life Science Business Architecture Model. 1429-1435
Applications Note - Sequence Analysis
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journals/bioinformatics/ZhangYZJXXCZZXCS11 Yuanwei Zhang ,
Yifan Yang ,
Huan Zhang ,
Xiaohua Jiang ,
Bo Xu ,
Yu Xue ,
Yunxia Cao ,
Qian Zhai ,
Yong Zhai ,
Mingqing Xu ,
Howard J. Cooke ,
Qinghua Shi :
Prediction of novel pre-microRNAs with high accuracy through boosting and SVM. 1436-1437
Structural Bioinformatics
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journals/bioinformatics/NugentWJ11
Gene Expression
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journals/bioinformatics/ChenWJ11 Li Chen ,
George Wu ,
Hongkai Ji :
hmChIP: a database and web server for exploring publicly available human and mouse ChIP-seq and ChIP-chip data. 1447-1448
Volume 27, Number 11, June 2011 Review - Structural Bioinformatics
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journals/bioinformatics/OroszO11
Original Papers - Genome Analysis
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journals/bioinformatics/YuZBXSW11
Sequence Analysis
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journals/bioinformatics/LeungYYPWLCQLC11
Gene Expression
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journals/bioinformatics/WangWX11
Genetics and Population Analysis
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journals/bioinformatics/HeHFE11
Systems Biology
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journals/bioinformatics/MuUUH11
Data and Text Mining
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Applications Note - Sequence Analysis
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Structural Bioinformatics
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Systems Biology
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Data and Text Mining
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journals/bioinformatics/Raychaudhuri11 Soumya Raychaudhuri :
VIZ-GRAIL: visualizing functional connections across disease loci. 1589-1590
Databases and Ontologies
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journals/bioinformatics/NagasakiSFTUIJM11 Volume 27, Number 12, June 2011 Original Papers - Genome Analysis
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journals/bioinformatics/BedoK11 Justin Bedo ,
Adam Kowalczyk :
Genome annotation test with validation on transcription start site and ChIP-Seq for Pol-II binding data. 1610-1617
Sequence Analysis
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journals/bioinformatics/MeinickeAL11
Structural Bioinformatics
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journals/bioinformatics/Bailey11 Timothy L. Bailey :
DREME: motif discovery in transcription factor ChIP-seq data. 1653-1659
Systems Biology
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Data and Text Mining
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Databases and Ontologies
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Applications Note - Genome Analysis
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