Krishna Choudhary, PhD

Title(s)Postdoctoral Scholar, Diabetes Center
SchoolSchool of Medicine
Address513 Parnassus Avenue, HSW, #1047
San Francisco CA 94143
ORCID ORCID Icon0000-0002-7966-1527 Additional info
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Spontaneous persistent activity and inactivity in vivo reveals differential cortico-entorhinal functional connectivity. Nat Commun. 2024 May 08; 15(1):3542. Choudhary K, Berberich S, Hahn TTG, McFarland JM, Mehta MR. PMID: 38719802; PMCID: PMC11079062.
      View in: PubMed   Mentions: 1     Fields:    Translation:AnimalsCells
    2. A Mesp1-dependent developmental breakpoint in transcriptional and epigenomic specification of early cardiac precursors. Development. 2023 05 01; 150(9). Krup AL, Winchester SAB, Ranade SS, Agrawal A, Devine WP, Sinha T, Choudhary K, Dominguez MH, Thomas R, Black BL, Srivastava D, Bruneau BG. PMID: 36994838; PMCID: PMC10259516.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    3. Transcription Factor GATA4 Regulates Cell Type-Specific Splicing Through Direct Interaction With RNA in Human Induced Pluripotent Stem Cell-Derived Cardiac Progenitors. Circulation. 2022 09 06; 146(10):770-787. Zhu L, Choudhary K, Gonzalez-Teran B, Ang YS, Thomas R, Stone NR, Liu L, Zhou P, Zhu C, Ruan H, Huang Y, Jin S, Pelonero A, Koback F, Padmanabhan A, Sadagopan N, Hsu A, Costa MW, Gifford CA, van Bemmel JG, Hüttenhain R, Vedantham V, Conklin BR, Black BL, Bruneau BG, Steinmetz L, Krogan NJ, Pollard KS, Srivastava D. PMID: 35938400; PMCID: PMC9452483.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    4. Transcription factor protein interactomes reveal genetic determinants in heart disease. Cell. 2022 03 03; 185(5):794-814.e30. Gonzalez-Teran B, Pittman M, Felix F, Thomas R, Richmond-Buccola D, Hüttenhain R, Choudhary K, Moroni E, Costa MW, Huang Y, Padmanabhan A, Alexanian M, Lee CY, Maven BEJ, Samse-Knapp K, Morton SU, McGregor M, Gifford CA, Seidman JG, Seidman CE, Gelb BD, Colombo G, Conklin BR, Black BL, Bruneau BG, Krogan NJ, Pollard KS, Srivastava D. PMID: 35182466; PMCID: PMC8923057.
      View in: PubMed   Mentions: 22     Fields:    Translation:Animals
    5. Transient Cell Cycle Induction in Cardiomyocytes to Treat Subacute Ischemic Heart Failure. Circulation. 2022 04 26; 145(17):1339-1355. Abouleisa RRE, Salama ABM, Ou Q, Tang XL, Solanki M, Guo Y, Nong Y, McNally L, Lorkiewicz PK, Kassem KM, Ahern BM, Choudhary K, Thomas R, Huang Y, Juhardeen HR, Siddique A, Ifthikar Z, Hammad SK, Elbaz AS, Ivey KN, Conklin DJ, Satin J, Hill BG, Srivastava D, Bolli R, Mohamed TMA. PMID: 35061545; PMCID: PMC9038650.
      View in: PubMed   Mentions: 21     Fields:    Translation:HumansAnimalsCells
    6. Author Correction: Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. Nat Aging. 2021 Dec; 1(12):1202. Taubes A, Nova P, Zalocusky KA, Kosti I, Bicak M, Zilberter MY, Hao Y, Yoon SY, Oskotsky T, Pineda S, Chen B, Aery Jones EA, Choudhary K, Grone B, Balestra ME, Chaudhry F, Paranjpe I, De Freitas J, Koutsodendris N, Chen N, Wang C, Chang W, An A, Glicksberg BS, Sirota M, Huang Y. PMID: 37117528.
      View in: PubMed   Mentions: 1     Fields:    
    7. Experimental and real-world evidence supporting the computational repurposing of bumetanide for APOE4-related Alzheimer's disease. Nat Aging. 2021 10; 1(10):932-947. Taubes A, Nova P, Zalocusky KA, Kosti I, Bicak M, Zilberter MY, Hao Y, Yoon SY, Oskotsky T, Pineda S, Chen B, Jones EAA, Choudhary K, Grone B, Balestra ME, Chaudhry F, Paranjpe I, De Freitas J, Koutsodendris N, Chen N, Wang C, Chang W, An A, Glicksberg BS, Sirota M, Huang Y. PMID: 36172600; PMCID: PMC9514594.
      View in: PubMed   Mentions: 41     Fields:    Translation:HumansAnimals
    8. Introducing R as a smart version of calculators enables beginners to explore it on their own. F1000Res. 2021; 10:859. Choudhary K, Pico AR. PMID: 35399224; PMCID: PMC8976183.2.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    9. scNetViz: from single cells to networks using Cytoscape. F1000Res. 2021; 10. Choudhary K, Meng EC, Diaz-Mejia JJ, Bader GD, Pico AR, Morris JH. PMID: 34912541; PMCID: PMC8593621.
      View in: PubMed   Mentions: 1     Fields:    
    10. Phenotypic Differences between the Alzheimer's Disease-Related hAPP-J20 Model and Heterozygous Zbtb20 Knock-Out Mice. eNeuro. 2021 May-Jun; 8(3). Gulbranson DR, Ho K, Yu GQ, Yu X, Das M, Shao E, Kim D, Zhang WJ, Choudhary K, Thomas R, Mucke L. PMID: 33833046; PMCID: PMC8121260.
      View in: PubMed   Mentions: 7     Fields:    Translation:Animals
    11. Urn models for stochastic gene expression yield intuitive insights into the probability distributions of single-cell mRNA and protein counts. Phys Biol. 2020 09 28; 17(6):066001. Choudhary K, Narang A. PMID: 32650327.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    12. Stability and nuclear localization of yeast telomerase depend on protein components of RNase P/MRP. Nat Commun. 2020 05 01; 11(1):2173. Garcia PD, Leach RW, Wadsworth GM, Choudhary K, Li H, Aviran S, Kim HD, Zakian VA. PMID: 32358529; PMCID: PMC7195438.
      View in: PubMed   Mentions: 14     Fields:    Translation:AnimalsCells
    13. Analytical Expressions and Physics for Single-Cell mRNA Distributions of the lac Operon of E. coli. Biophys J. 2019 08 06; 117(3):572-586. Choudhary K, Narang A. PMID: 31331635; PMCID: PMC6697386.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    14. Genome-Wide Discovery of DEAD-Box RNA Helicase Targets Reveals RNA Structural Remodeling in Transcription Termination. Genetics. 2019 05; 212(1):153-174. Lai YH, Choudhary K, Cloutier SC, Xing Z, Aviran S, Tran EJ. PMID: 30902808; PMCID: PMC6499532.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
    15. dStruct: identifying differentially reactive regions from RNA structurome profiling data. Genome Biol. 2019 02 21; 20(1):40. Choudhary K, Lai YH, Tran EJ, Aviran S. PMID: 30791935; PMCID: PMC6385470.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    16. Probing of RNA structures in a positive sense RNA virus reveals selection pressures for structural elements. Nucleic Acids Res. 2018 03 16; 46(5):2573-2584. Watters KE, Choudhary K, Aviran S, Lucks JB, Perry KL, Thompson JR. PMID: 29294088; PMCID: PMC5861449.
      View in: PubMed   Mentions: 16     Fields:    Translation:Cells
    17. Comparative and integrative analysis of RNA structural profiling data: current practices and emerging questions. Quant Biol. 2017 Mar; 5(1):3-24. Choudhary K, Deng F, Aviran S. PMID: 28717530; PMCID: PMC5510538.
      View in: PubMed   Mentions: 21  
    18. SEQualyzer: interactive tool for quality control and exploratory analysis of high-throughput RNA structural profiling data. Bioinformatics. 2017 02 01; 33(3):441-443. Choudhary K, Ruan L, Deng F, Shih N, Aviran S. PMID: 28172632; PMCID: PMC6075182.
      View in: PubMed   Mentions: 5     Fields:    
    19. Metrics for rapid quality control in RNA structure probing experiments. Bioinformatics. 2016 12 01; 32(23):3575-3583. Choudhary K, Shih NP, Deng F, Ledda M, Li B, Aviran S. PMID: 27497441; PMCID: PMC5181532.
      View in: PubMed   Mentions: 11     Fields:    
    20. Protein distributions from a stochastic model of the lac operon of E. coli with DNA looping: analytical solution and comparison with experiments. PLoS One. 2014; 9(7):e102580. Choudhary K, Oehler S, Narang A. PMID: 25055040; PMCID: PMC4108355.
      View in: PubMed   Mentions: 4     Fields:    Translation:Cells
    21. Re-programming DNA-binding specificity in zinc finger proteins for targeting unique address in a genome. Syst Synth Biol. 2010 Dec; 4(4):323-9. Grover A, Pande A, Choudhary K, Gupta K, Sundar D. PMID: 22132059; PMCID: PMC3065587.
      View in: PubMed   Mentions: 4  
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