| Bioconda: sustainable and comprehensive software distribution for the life sciences B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ... Nature methods 15 (7), 475-476, 2018 | 1212 | 2018 |
| Dictionary learning for integrative, multimodal and scalable single-cell analysis Y Hao, T Stuart, MH Kowalski, S Choudhary, P Hoffman, A Hartman, ... Nature biotechnology 42 (2), 293-304, 2024 | 1181 | 2024 |
| Comparison and evaluation of statistical error models for scRNA-seq S Choudhary, R Satija Genome biology 23 (1), 27, 2022 | 328 | 2022 |
| Reaction Decoder Tool (RDT): extracting features from chemical reactions SA Rahman, G Torrance, L Baldacci, S Martínez Cuesta, F Fenninger, ... Bioinformatics 32 (13), 2065-2066, 2016 | 103 | 2016 |
| Mapping person-to-person variation in viral mutations that escape polyclonal serum targeting influenza hemagglutinin JM Lee, R Eguia, SJ Zost, S Choudhary, PC Wilson, T Bedford, ... BioRxiv, 670497, 2019 | 97 | 2019 |
| Accurate detection of short and long active ORFs using Ribo-seq data S Choudhary, W Li, A D. Smith Bioinformatics 36 (7), 2053-2059, 2020 | 54 | 2020 |
| Autoantibody profiling of glioma serum samples to identify biomarkers using human proteome arrays P Syed, S Gupta, S Choudhary, NG Pandala, A Atak, A Richharia, M Kp, ... Scientific reports 5 (1), 13895, 2015 | 53 | 2015 |
| pysradb: A Python package to query next-generation sequencing metadata and data from NCBI Sequence Read Archive S Choudhary F1000Research 8, 2019 | 48 | 2019 |
| Oscad: An open source EDA tool for circuit design, simulation, analysis and PCB design YD Save, R Rakhi, ND Shambhulingayya, A Srivastava, MR Das, ... 2013 IEEE 20th International Conference on Electronics, Circuits, and …, 2013 | 32 | 2013 |
| Genomic analyses of early responses to radiation in glioblastoma reveal new alterations at transcription, splicing, and translation levels S Choudhary, SC Burns, H Mirsafian, W Li, DT Vo, M Qiao, X Lei, ... Scientific reports 10 (1), 8979, 2020 | 30 | 2020 |
| Anatomy of BioJS, an open source community for the life sciences G Yachdav, T Goldberg, S Wilzbach, D Dao, I Shih, S Choudhary, ... Elife 4, e07009, 2015 | 30 | 2015 |
| Evaluation of autoantibody signatures in meningioma patients using human proteome arrays. S Gupta, S Mukherjee, P Syed, N Goud, S Choudhary, VA Singh, N Singh, ... Oncotarget, 2017 | 26 | 2017 |
| Global translational landscape of the Candida albicans morphological transition V Mundodi, S Choudhary, AD Smith, D Kadosh G3 11 (2), jkaa043, 2021 | 18 | 2021 |
| Musashi1 contribution to glioblastoma development via regulation of a network of DNA replication, cell cycle and division genes M Baroni, C Yi, S Choudhary, X Lei, A Kosti, D Grieshober, M Velasco, ... Cancers 13 (7), 1494, 2021 | 16 | 2021 |
| Multiplexed single-cell characterization of alternative polyadenylation regulators MH Kowalski, HH Wessels, J Linder, C Dalgarno, I Mascio, S Choudhary, ... Cell 187 (16), 4408-4425. e23, 2024 | 15* | 2024 |
| Genome-wide translational response of Candida albicans to fluconazole treatment S Choudhary, V Mundodi, AD Smith, D Kadosh Microbiology Spectrum 11 (5), e02572-23, 2023 | 6 | 2023 |
| Scilab on Cloud and Textbook Companion Project: A Web 2.0 Service for Open Source Education S Choudhary, V Raj, K Sanmugasundaram, GS Patel, K Moudgalya 2013 International Conference on Cloud Computing and Big Data, 438-443, 2013 | 4 | 2013 |
| Development of piezo-electric sensor based noninvasive low cost Arterial Pulse Analyzer P Gatkine, S Gatkine, S Poojary, S Chaudhary, S Noronha The 6th 2013 Biomedical Engineering International Conference, 1-4, 2013 | 3 | 2013 |
| HPVsim: An agent-based model of HPV transmission and cervical disease RM Stuart, JA Cohen, CC Kerr, P Mathur, ... PLOS Computational Biology 20 (7), e1012181, 2024 | 2 | 2024 |
| Predicting protein coding boundaries using RNNs S Choudhary http://www.saket-choudhary.me/rnn-cds-prediction/predicting-protein-coding.pdf, 2017 | 2 | 2017 |