| The 4D nucleome project J Dekker, AS Belmont, M Guttman, VO Leshyk, JT Lis, S Lomvardas, ... Nature 549 (7671), 219-226, 2017 | 638 | 2017 |
| Mapping 3D genome organization relative to nuclear compartments using TSA-Seq as a cytological ruler Y Chen, Y Zhang, Y Wang, L Zhang, EK Brinkman, SA Adam, R Goldman, ... Journal of Cell Biology 217 (11), 4025-4048, 2018 | 331 | 2018 |
| Fasting-induced FGF21 signaling activates hepatic autophagy and lipid degradation via JMJD3 histone demethylase S Byun, S Seok, YC Kim, Y Zhang, P Yau, N Iwamori, HE Xu, J Ma, ... Nature communications 11 (1), 807, 2020 | 150 | 2020 |
| A natural antisense lncRNA controls breast cancer progression by promoting tumor suppressor gene mRNA stability M Jadaliha, O Gholamalamdari, W Tang, Y Zhang, A Petracovici, Q Hao, ... PLoS genetics 14 (11), e1007802, 2018 | 143 | 2018 |
| SPIN reveals genome-wide landscape of nuclear compartmentalization Y Wang, Y Zhang, R Zhang, T van Schaik, L Zhang, T Sasaki, ... Genome biology 22, 1-23, 2021 | 73 | 2021 |
| TSA-seq reveals a largely conserved genome organization relative to nuclear speckles with small position changes tightly correlated with gene expression changes L Zhang, Y Zhang, Y Chen, O Gholamalamdari, Y Wang, J Ma, ... Genome research 31 (2), 251-264, 2021 | 71 | 2021 |
| Fasting-induced JMJD3 histone demethylase epigenetically activates mitochondrial fatty acid β-oxidation S Seok, YC Kim, S Byun, S Choi, Z Xiao, N Iwamori, Y Zhang, C Wang, ... The Journal of clinical investigation 128 (7), 3144-3159, 2018 | 65 | 2018 |
| Predicting CTCF-mediated chromatin loops using CTCF-MP R Zhang, Y Wang, Y Yang, Y Zhang, J Ma Bioinformatics 34 (13), i133-i141, 2018 | 56 | 2018 |
| A postprandial FGF 19‐SHP‐LSD 1 regulatory axis mediates epigenetic repression of hepatic autophagy S Byun, YC Kim, Y Zhang, B Kong, G Guo, J Sadoshima, J Ma, B Kemper, ... The EMBO journal 36 (12), 1755-1769, 2017 | 55 | 2017 |
| The p23 molecular chaperone and GCN5 acetylase jointly modulate protein-DNA dynamics and open chromatin status E Zelin, Y Zhang, OA Toogun, S Zhong, BC Freeman Molecular cell 48 (3), 459-470, 2012 | 54 | 2012 |
| Hsp90 and p23 molecular chaperones control chromatin architecture by maintaining the functional pool of the RSC chromatin remodeler FJ Echtenkamp, Z Gvozdenov, NL Adkins, Y Zhang, M Lynch-Day, ... Molecular cell 64 (5), 888-899, 2016 | 50 | 2016 |
| AhR and SHP regulate phosphatidylcholine and S-adenosylmethionine levels in the one-carbon cycle YC Kim, S Seok, S Byun, B Kong, Y Zhang, G Guo, W Xie, J Ma, B Kemper, ... Nature communications 9 (1), 540, 2018 | 46 | 2018 |
| Intestinal FGF15/19 physiologically repress hepatic lipogenesis in the late fed-state by activating SHP and DNMT3A YC Kim, S Seok, Y Zhang, J Ma, B Kong, G Guo, B Kemper, JK Kemper Nature communications 11 (1), 5969, 2020 | 45 | 2020 |
| Liver ChIP-seq analysis in FGF19-treated mice reveals SHP as a global transcriptional partner of SREBP-2 YC Kim, S Byun, Y Zhang, S Seok, B Kemper, J Ma, JK Kemper Genome biology 16 (1), 268, 2015 | 42 | 2015 |
| Evolution of gene regulation in ruminants differs between evolutionary breakpoint regions and homologous synteny blocks M Farré, J Kim, AA Proskuryakova, Y Zhang, AI Kulemzina, Q Li, Y Zhou, ... Genome research 29 (4), 576-589, 2019 | 40 | 2019 |
| PSIP1/p75 promotes tumorigenicity in breast cancer cells by promoting the transcription of cell cycle genes DK Singh, O Gholamalamdari, M Jadaliha, X Ling Li, YC Lin, Y Zhang, ... Carcinogenesis 38 (10), 966-975, 2017 | 29 | 2017 |
| Comparing 3D genome organization in multiple species using Phylo-HMRF Y Yang, Y Zhang, B Ren, JR Dixon, J Ma Cell systems 8 (6), 494-505. e14, 2019 | 28 | 2019 |
| MicroRNA‐210 Promotes Bile Acid–Induced Cholestatic Liver Injury by Targeting Mixed‐Lineage Leukemia‐4 Methyltransferase in Mice YC Kim, H Jung, S Seok, Y Zhang, J Ma, T Li, B Kemper, JK Kemper Hepatology 71 (6), 2118-2134, 2020 | 27 | 2020 |
| Tracing the evolution of lineage-specific transcription factor binding sites in a birth-death framework KD Yokoyama, Y Zhang, J Ma PLoS computational biology 10 (8), e1003771, 2014 | 27 | 2014 |
| Enrichment analysis of Alu elements with different spatial chromatin proximity in the human genome Z Gu, K Jin, MJC Crabbe, Y Zhang, X Liu, Y Huang, M Hua, P Nan, ... Protein & Cell 7 (4), 250-266, 2016 | 26 | 2016 |
Jian MaRay and Stephanie Lane Professor of Computational Biology, Carnegie Mellon UniversityVerified email at cs.cmu.edu
