| New developments on the Encyclopedia of DNA Elements (ENCODE) data portal Y Luo, BC Hitz, I Gabdank, JA Hilton, MS Kagda, B Lam, Z Myers, P Sud, ... Nucleic acids research 48 (D1), D882-D889, 2020 | 433 | 2020 |
| Genome-wide Prediction and Functional Validation of Promoter Motifs Regulating Gene Expression in Spore and Infection Stages of Phytophthora infestans S Roy, M Kagda, HS Judelson PLoS pathogens 9 (3), e1003182, 2013 | 32 | 2013 |
| Annotating and prioritizing human non-coding variants with RegulomeDB v. 2 S Dong, N Zhao, E Spragins, MS Kagda, M Li, P Assis, O Jolanki, Y Luo, ... Nature Genetics 55 (5), 724-726, 2023 | 31 | 2023 |
| Rethinking the evolution of eukaryotic metabolism: novel cellular partitioning of enzymes in stramenopiles links serine biosynthesis to glycolysis in mitochondria M Abrahamian, M Kagda, AMV Ah-Fong, HS Judelson BMC evolutionary biology 17, 1-16, 2017 | 26 | 2017 |
| The ENCODE uniform analysis pipelines BC Hitz, JW Lee, O Jolanki, MS Kagda, K Graham, P Sud, I Gabdank, ... Research Square, 2023 | 25 | 2023 |
| The ENCODE portal as an epigenomics resource J Jou, I Gabdank, Y Luo, K Lin, P Sud, Z Myers, JA Hilton, MS Kagda, ... Current protocols in bioinformatics 68 (1), e89, 2019 | 25 | 2019 |
| Niche-specific metabolic adaptation in biotrophic and necrotrophic oomycetes is manifested in differential use of nutrients, variation in gene content, and enzyme evolution AMV Ah-Fong, MS Kagda, M Abrahamian, HS Judelson PLoS Pathogens 15 (4), e1007729, 2019 | 25 | 2019 |
| Experimental acute exposure to thirdhand smoke and changes in the human nasal epithelial transcriptome: a randomized clinical trial GL Pozuelos, MS Kagda, S Schick, T Girke, DC Volz, P Talbot JAMA network open 2 (6), e196362-e196362, 2019 | 21 | 2019 |
| The ENCODE4 long-read RNA-seq collection reveals distinct classes of transcript structure diversity F Reese, B Williams, G Balderrama-Gutierrez, D Wyman, MH Çelik, ... bioRxiv, 2023 | 10 | 2023 |
| Transcriptomic evidence that switching from tobacco to electronic cigarettes does not reverse damage to the respiratory epithelium GL Pozuelos, M Kagda, MA Rubin, ML Goniewicz, T Girke, P Talbot Toxics 10 (7), 370, 2022 | 10 | 2022 |
| Telomeric TART elements target the piRNA machinery in Drosophila CE Ellison, MS Kagda, W Cao PLoS biology 18 (12), e3000689, 2020 | 7* | 2020 |
| Phosphagen kinase function in flagellated spores of the oomycete Phytophthora infestans integrates transcriptional regulation, metabolic dynamics and protein … MS Kagda, AL Vu, AMV Ah‐Fong, HS Judelson Molecular Microbiology 110 (2), 296-308, 2018 | 6 | 2018 |
| Illuminating Phytophthora Biology with Fluorescent Protein Tags AMV Ah-Fong, M Kagda, HS Judelson Plant Pathogenic Fungi and Oomycetes: Methods and Protocols, 119-129, 2018 | 6 | 2018 |
| Invertases in Phytophthora infestans localize to haustoria and are programmed for infection-specific expression MS Kagda, D Martínez-Soto, AMV Ah-Fong, HS Judelson MBio 11 (5), 10.1128/mbio. 01251-20, 2020 | 5 | 2020 |
| Data navigation on the ENCODE portal MS Kagda, B Lam, C Litton, C Small, CA Sloan, E Spragins, F Tanaka, ... arXiv preprint arXiv:2305.00006, 2023 | 4 | 2023 |
| RNAget: an API to securely retrieve RNA quantifications S Upchurch, E Palumbo, J Adams, D Bujold, G Bourque, J Nedzel, ... Bioinformatics 39 (4), btad126, 2023 | 3 | 2023 |
| Insight into the dynamic metabolism of Phytophthora infestans MS Kagda University of California, Riverside, 2017 | 3 | 2017 |
| Integrative chromatin state annotation of 234 human ENCODE4 cell types using Segway reveals disease drivers M Farahbod, AR Diab, P Sud, M Kagda, I Whaling, M Foroozandeh, I Goel, ... bioRxiv, 2023.10. 26.564254, 2023 | 1 | 2023 |
| The Impact of Genomic Variation on Function (IGVF) Consortium I Consortium arxiv, 2023 | | 2023 |
| Dive into Epigenetics and Gene Regulation-Navigation using the ENCODE Portal JN Au, I Gabdank, Y Luo, M Kagda, B Lam, I Youngworth, P Adenekan, ... EUROPEAN JOURNAL OF HUMAN GENETICS 28 (SUPPL 1), 744-744, 2020 | | 2020 |
Benjamin HitzVerified email at stanford.edu
