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Publication search results
found 21 matches
- 2023
- Wenyi Yang, Pingping Wang, Meng Luo, Yideng Cai, Chang Xu, Guangfu Xue, Xiyun Jin, Rui Cheng, Jinhao Que, Fenglan Pang, Yuexin Yang, Huan Nie, Qinghua Jiang, Zhigang Liu, Zhaochun Xu:
DeepCCI: a deep learning framework for identifying cell-cell interactions from single-cell RNA sequencing data. Bioinform. 39(10) (2023) - Huishi Toh, Atefeh Bagheri, Colin N. Dewey, Ron M. Stewart, Lili Yan, Dennis Clegg, James A. Thomson, Peng Jiang:
A Nile rat transcriptomic landscape across 22 organs by ultra-deep sequencing and comparative RNA-seq pipeline (CRSP). Comput. Biol. Chem. 102: 107795 (2023) - Dong Jun Jee, Yixin Kong, Hyonho Chun:
Deep Nonnegative Matrix Factorization Using a Variational Autoencoder With Application to Single-Cell RNA Sequencing Data. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 883-893 (2023) - 2022
- Siqi Bao, Ke Li, Congcong Yan, Zicheng Zhang, Jia Qu, Meng Zhou:
Deep learning-based advances and applications for single-cell RNA-sequencing data analysis. Briefings Bioinform. 23(1) (2022) - Jiacheng Wang, Quan Zou, Chen Lin:
A comparison of deep learning-based pre-processing and clustering approaches for single-cell RNA sequencing data. Briefings Bioinform. 23(1) (2022) - Grigorii Sukhorukov, Maryam Khalili, Olivier Gascuel, Thierry Candresse, Armelle Marais-Colombel, Macha Nikolski:
VirHunter: A Deep Learning-Based Method for Detection of Novel RNA Viruses in Plant Sequencing Data. Frontiers Bioinform. 2 (2022) - Matthew Brendel, Chang Su, Zilong Bai, Hao Zhang, Olivier Elemento, Fei Wang:
Application of Deep Learning on Single-cell RNA Sequencing Data Analysis: A Review. Genom. Proteom. Bioinform. 20(5): 814-835 (2022) - Lihong Peng, Ruya Yuan, Chendi Han, Jingwei Tan, Zhao Wang, Min Chen, Xing Chen:
Analyses of cell-to-cell communication combining a heterogeneous deep ensemble framework and scoring approaches from single-cell RNA sequencing data. BIBM 2022: 515-522 - Matthew Brendel, Chang Su, Zilong Bai, Hao Zhang, Olivier Elemento, Fei Wang:
Application of Deep Learning on Single-Cell RNA-sequencing Data Analysis: A Review. CoRR abs/2210.05677 (2022) - 2020
- Eugene Lin, Sudipto Mukherjee, Sreeram Kannan:
A deep adversarial variational autoencoder model for dimensionality reduction in single-cell RNA sequencing analysis. BMC Bioinform. 21(1): 64 (2020) - Lifei Wang, Rui Nie, Zeyang Yu, Ruyue Xin, Caihong Zheng, Zhang Zhang, Jiang Zhang, Jun Cai:
An interpretable deep-learning architecture of capsule networks for identifying cell-type gene expression programs from single-cell RNA-sequencing data. Nat. Mach. Intell. 2(11): 693-703 (2020) - Pablo Guillén-Rondon, Jerry Osagie Ebalunode, Melvin Deloyd Robinson:
Deep learning to classify single-cell RNA sequencing in primary glioblastoma. EATIS 2020: 45:1-45:4 - 2017
- Romain Lopez, Jeffrey Regier, Michael I. Jordan, Nir Yosef:
A deep generative model for gene expression profiles from single-cell RNA sequencing. CoRR abs/1709.02082 (2017) - (Withdrawn) A deep generative model for single-cell RNA sequencing with application to detecting differentially expressed genes. CoRR abs/1710.05086 (2017)
- 2016
- Lorena Pantano, Marc R. Friedländer, Geòrgia Escaramís, Esther Lizano, Joan Pallarès-Albanell, Isidre Ferrer, Xavier Estivill, Eulalia Martí:
Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis. Bioinform. 32(5): 673-681 (2016) - Mariko Tsuchiya, Kojiro Amano, Masaya Abe, Misato Seki, Sumitaka Hase, Kengo Sato, Yasubumi Sakakibara:
SHARAKU: an algorithm for aligning and clustering read mapping profiles of deep sequencing in non-coding RNA processing. Bioinform. 32(12): 369-377 (2016) - Ling-Ling Zheng, Jun-Hao Li, Jie Wu, Wen-Ju Sun, Shun Liu, Ze-Lin Wang, Hui Zhou, Jian-Hua Yang, Liang-Hu Qu:
deepBase v2.0: identification, expression, evolution and function of small RNAs, LncRNAs and circular RNAs from deep-sequencing data. Nucleic Acids Res. 44(Database-Issue): 196-202 (2016) - 2015
- Vincenzo Capece, Julio C. Garcia Vizcaino, Ramon Vidal, Raza-Ur Rahman, Tonatiuh Pena Centeno, Orr Shomroni, Irantzu Suberviola, André Fischer, Stefan Bonn:
Oasis: online analysis of small RNA deep sequencing data. Bioinform. 31(13): 2205-2207 (2015) - 2012
- Yuanwei Zhang, Bo Xu, Yifan Yang, Rongjun Ban, Huan Zhang, Xiaohua Jiang, Howard J. Cooke, Yu Xue, Qinghua Shi:
CPSS: a computational platform for the analysis of small RNA deep sequencing data. Bioinform. 28(14): 1925-1927 (2012) - 2011
- Ofer Isakov, Shira Modai, Noam Shomron:
Pathogen detection using short-RNA deep sequencing subtraction and assembly. Bioinform. 27(15): 2027-2030 (2011) - 2010
- Po-Jung Huang, Yi-Chung Liu, Chi-Ching Lee, Wei-Chen Lin, Richie Ruei-Chi Gan, Ping-Chiang Lyu, Petrus Tang:
DSAP: deep-sequencing small RNA analysis pipeline. Nucleic Acids Res. 38(Web-Server-Issue): 385-391 (2010)
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