Jamie M. Hearnes, Ph.D. - Related publications

2005 Vanderbilt University, Nashville, TN 
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Poon GMK. The Non-continuum Nature of Eukaryotic Transcriptional Regulation. Advances in Experimental Medicine and Biology. PMID 33616894 DOI: 10.1007/5584_2021_618   
2021 Falak N, Imran QM, Hussain A, Yun BW. Transcription Factors as the "Blitzkrieg" of Plant Defense: A Pragmatic View of Nitric Oxide's Role in Gene Regulation. International Journal of Molecular Sciences. 22. PMID 33430258 DOI: 10.3390/ijms22020522   
2021 Roy D, Sadanandom A. SUMO mediated regulation of transcription factors as a mechanism for transducing environmental cues into cellular signaling in plants. Cellular and Molecular Life Sciences : Cmls. PMID 33452901 DOI: 10.1007/s00018-020-03723-4   
2021 Duan A, Wang H, Zhu Y, Wang Q, Zhang J, Hou Q, Xing Y, Shi J, Hou J, Qin Z, Chen Z, Liu Z, Yang J. Chromatin architecture reveals cell type-specific target genes for kidney disease risk variants. Bmc Biology. 19: 38. PMID 33627123 DOI: 10.1186/s12915-021-00977-7   
2021 Song R, Struhl K. S100A8/S100A9 cytokine acts as a transcriptional coactivator during breast cellular transformation. Science Advances. 7. PMID 33523865 DOI: 10.1126/sciadv.abe5357   
2021 Trouillon J, Ragno M, Simon V, Attrée I, Elsen S. Transcription Inhibitors with XRE DNA-Binding and Cupin Signal-Sensing Domains Drive Metabolic Diversification in . Msystems. 6. PMID 33436508 DOI: 10.1128/mSystems.00753-20   
2021 Chen B, Sun D, Qin X, Gao XH. Screening and identification of potential biomarkers and therapeutic drugs in melanoma via integrated bioinformatics analysis. Investigational New Drugs. PMID 33501609 DOI: 10.1007/s10637-021-01072-y   
2021 Browne JA, NandyMazumdar M, Paranjapye A, Leir SH, Harris A. The Bromodomain Containing 8 (BRD8) Transcriptional Network in Human Lung Epithelial Cells. Molecular and Cellular Endocrinology. 111169. PMID 33476703 DOI: 10.1016/j.mce.2021.111169   
2021 Ma L, Gao Z, Wu J, Zhong B, Xie Y, Huang W, Lin Y. Co-condensation between transcription factor and coactivator p300 modulates transcriptional bursting kinetics. Molecular Cell. PMID 33651988 DOI: 10.1016/j.molcel.2021.01.031   
2021 Chen H, Franklin Pugh B. What do transcription factors interact with? Journal of Molecular Biology. 166883. PMID 33621520 DOI: 10.1016/j.jmb.2021.166883   
2021 Chandra S, Ehrlich KC, Lacey M, Baribault C, Ehrlich M. Epigenetics and expression of key genes associated with cardiac fibrosis: and . Epigenomics. PMID 33538177 DOI: 10.2217/epi-2020-0446   
2021 Crump NT, Ballabio E, Godfrey L, Thorne R, Repapi E, Kerry J, Tapia M, Hua P, Lagerholm C, Filippakopoulos P, Davies JOJ, Milne TA. BET inhibition disrupts transcription but retains enhancer-promoter contact. Nature Communications. 12: 223. PMID 33431820 DOI: 10.1038/s41467-020-20400-z   
2021 Pieplow A, Dastaw M, Sakuma T, Sakamoto N, Yamamoto T, Yajima M, Oulhen N, Wessel GM. CRISPR-Cas9 editing of non-coding genomic loci as a means of controlling gene expression in the sea urchin. Developmental Biology. PMID 33482173 DOI: 10.1016/j.ydbio.2021.01.003   
2021 Larke MSC, Schwessinger R, Nojima T, Telenius J, Beagrie RA, Downes DJ, Oudelaar AM, Truch J, Graham B, Bender MA, Proudfoot NJ, Higgs DR, Hughes JR. Enhancers predominantly regulate gene expression during differentiation via transcription initiation. Molecular Cell. PMID 33539786 DOI: 10.1016/j.molcel.2021.01.002   
2021 Ma M, Welch RD, Garza AG. The σ system directly regulates bacterial natural product genes. Scientific Reports. 11: 4771. PMID 33637792 DOI: 10.1038/s41598-021-84057-4   
2021 Wang Z, Wang P, Li Y, Peng H, Zhu Y, Mohandas N, Liu J. Interplay between cofactors and transcription factors in hematopoiesis and hematological malignancies. Signal Transduction and Targeted Therapy. 6: 24. PMID 33468999 DOI: 10.1038/s41392-020-00422-1   
2021 Blevins WR, Ruiz-Orera J, Messeguer X, Blasco-Moreno B, Villanueva-Cañas JL, Espinar L, Díez J, Carey LB, Albà MM. Uncovering de novo gene birth in yeast using deep transcriptomics. Nature Communications. 12: 604. PMID 33504782 DOI: 10.1038/s41467-021-20911-3   
2021 Blake S, Hemming I, Heng JI, Agostino M. Structure-Based Approaches to Classify the Functional Impact of ZBTB18 Missense Variants in Health and Disease. Acs Chemical Neuroscience. PMID 33621064 DOI: 10.1021/acschemneuro.0c00758   
2021 von Scheidt M, Zhao Y, de Aguiar Vallim TQ, Che N, Wierer M, Seldin MM, Franzén O, Kurt Z, Pang S, Bongiovanni D, Yamamoto M, Edwards PA, Ruusalepp A, Kovacic JC, Mann M, et al. The Transcription Factor MAFF Regulates an Atherosclerosis Relevant Network Connecting Inflammation and Cholesterol Metabolism. Circulation. PMID 33626882 DOI: 10.1161/CIRCULATIONAHA.120.050186   
2021 Ajit K, Murphy BD, Banerjee A. Elucidating evolutionarily conserved mechanisms of diapause regulation using an in silico approach. Febs Letters. PMID 33650678 DOI: 10.1002/1873-3468.14064   
2021 Boonekamp KE, Heo I, Artegiani B, Asra P, van Son G, de Ligt J, Clevers H. Identification of novel human Wnt target genes using adult endodermal tissue-derived organoids. Developmental Biology. PMID 33571486 DOI: 10.1016/j.ydbio.2021.01.009   
2021 Barysch SV, Stankovic-Valentin N, Miedema T, Karaca S, Doppel J, Nait Achour T, Vasudeva A, Wolf L, Sticht C, Urlaub H, Melchior F. Transient deSUMOylation of IRF2BP proteins controls early transcription in EGFR signaling. Embo Reports. e49651. PMID 33480129 DOI: 10.15252/embr.201949651   
2021 Zhai W, Ye X, Wang Y, Feng Y, Wang Y, Lin Y, Ding L, Yang L, Wang X, Kuang Y, Fu X, Eugene Chin Y, Jia B, Zhu B, Ren F, et al. CREPT/RPRD1B promotes tumorigenesis through STAT3-driven gene transcription in a p300-dependent manner. British Journal of Cancer. PMID 33531691 DOI: 10.1038/s41416-021-01269-1   
2021 Griffith BGC, Upstill-Goddard R, Brunton H, Grimes GR, Biankin AV, Serrels B, Byron A, Frame MC. FAK regulates IL-33 expression by controlling chromatin accessibility at c-Jun motifs. Scientific Reports. 11: 229. PMID 33420223 DOI: 10.1038/s41598-020-80111-9   
2021 Davies R, Liu L, Taotao S, Tuano N, Chaturvedi R, Huang KK, Itman C, Mandoli A, Qamra A, Hu C, Powell D, Daly RJ, Tan P, Rosenbluh J. CRISPRi enables isoform-specific loss-of-function screens and identification of gastric cancer-specific isoform dependencies. Genome Biology. 22: 47. PMID 33499898 DOI: 10.1186/s13059-021-02266-6   
2021 Jana T, Brodsky S, Barkai N. Speed-Specificity Trade-Offs in the Transcription Factors Search for Their Genomic Binding Sites. Trends in Genetics : Tig. PMID 33414013 DOI: 10.1016/j.tig.2020.12.001   
2021 Thakur V, Bains S, Kaur R, Singh K. Identification and characterization of SlbHLH, SlDof and SlWRKY transcription factors interacting with SlDPD gene involved in costunolide biosynthesis in Saussurea lappa. International Journal of Biological Macromolecules. PMID 33482203 DOI: 10.1016/j.ijbiomac.2021.01.114   
2021 Her YR, Wang L, Chepelev I, Manterola M, Berkovits B, Cui K, Zhao K, Wolgemuth DJ. Genome-wide chromatin occupancy of BRDT and gene expression analysis suggest transcriptional partners and specific epigenetic landscapes that regulate gene expression during spermatogenesis. Molecular Reproduction and Development. PMID 33469999 DOI: 10.1002/mrd.23449   
2021 Gallaher SD, Craig RJ, Ganesan I, Purvine SO, McCorkle SR, Grimwood J, Strenkert D, Davidi L, Roth MS, Jeffers TL, Lipton MS, Niyogi KK, Schmutz J, Theg SM, Blaby-Haas CE, et al. Widespread polycistronic gene expression in green algae. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 33579822 DOI: 10.1073/pnas.2017714118   
2021 Xiao J, Jin X, Zhang C, Zou H, Chang Z, Han N, Li X, Zhang Y, Li Y. Systematic analysis of enhancer regulatory circuit perturbation driven by copy number variations in malignant glioma. Theranostics. 11: 3060-3073. PMID 33537074 DOI: 10.7150/thno.54150   
2021 Boulanger M, Chakraborty M, Tempé D, Piechaczyk M, Bossis G. SUMO and Transcriptional Regulation: The Lessons of Large-Scale Proteomic, Modifomic and Genomic Studies. Molecules (Basel, Switzerland). 26. PMID 33562565 DOI: 10.3390/molecules26040828   
2021 Kubo N, Ishii H, Xiong X, Bianco S, Meitinger F, Hu R, Hocker JD, Conte M, Gorkin D, Yu M, Li B, Dixon JR, Hu M, Nicodemi M, Zhao H, et al. Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation. Nature Structural & Molecular Biology. PMID 33398174 DOI: 10.1038/s41594-020-00539-5   
2021 Morrison M, Razo-Mejia M, Phillips R. Reconciling kinetic and thermodynamic models of bacterial transcription. Plos Computational Biology. 17: e1008572. PMID 33465069 DOI: 10.1371/journal.pcbi.1008572   
2021 Kitazawa T, Machlab D, Joshi O, Maiorano N, Kohler H, Ducret S, Kessler S, Gezelius H, Soneson C, Papasaikas P, López-Bendito G, Stadler MB, Rijli FM. A unique bipartite Polycomb signature regulates stimulus-response transcription during development. Nature Genetics. PMID 33603234 DOI: 10.1038/s41588-021-00789-z   
2021 Badjatia N, Rossi MJ, Bataille AR, Mittal C, Lai WKM, Pugh BF. Acute stress drives global repression through two independent RNA polymerase II stalling events in Saccharomyces. Cell Reports. 34: 108640. PMID 33472084 DOI: 10.1016/j.celrep.2020.108640   
2021 Xie Q, Yu Q, Jobe TO, Pham A, Ge C, Guo Q, Liu J, Liu H, Zhang H, Zhao Y, Xue S, Hauser F, Schroeder JI. An amiRNA screen uncovers redundant CBF & ERF34/35 transcription factors that differentially regulate arsenite and cadmium responses. Plant, Cell & Environment. PMID 33554343 DOI: 10.1111/pce.14023   
2021 Schneider N, Wieland FG, Kong D, Fischer AAM, Hörner M, Timmer J, Ye H, Weber W. Liquid-liquid phase separation of light-inducible transcription factors increases transcription activation in mammalian cells and mice. Science Advances. 7. PMID 33523844 DOI: 10.1126/sciadv.abd3568   
2021 Schneider N, Wieland FG, Kong D, Fischer AAM, Hörner M, Timmer J, Ye H, Weber W. Liquid-liquid phase separation of light-inducible transcription factors increases transcription activation in mammalian cells and mice. Science Advances. 7. PMID 33523844 DOI: 10.1126/sciadv.abd3568   
2021 Wang T, Tague N, Whelan SA, Dunlop MJ. Programmable gene regulation for metabolic engineering using decoy transcription factor binding sites. Nucleic Acids Research. 49: 1163-1172. PMID 33367820 DOI: 10.1093/nar/gkaa1234   
2021 McNamara AV, Awais R, Momiji H, Dunham L, Featherstone K, Harper CV, Adamson AA, Semprini S, Jones NA, Spiller DG, Mullins JJ, Finkenstädt BF, Rand D, White MRH, Davis JRE. Transcription factor Pit-1 affects transcriptional timing in the dual-promoter human prolactin gene. Endocrinology. PMID 33388754 DOI: 10.1210/endocr/bqaa249   
2021 Yu TC, Liu WL, Brinck MS, Davis JE, Shek J, Bower G, Einav T, Insigne KD, Phillips R, Kosuri S, Urtecho G. Multiplexed characterization of rationally designed promoter architectures deconstructs combinatorial logic for IPTG-inducible systems. Nature Communications. 12: 325. PMID 33436562 DOI: 10.1038/s41467-020-20094-3   
2021 Yu TC, Liu WL, Brinck MS, Davis JE, Shek J, Bower G, Einav T, Insigne KD, Phillips R, Kosuri S, Urtecho G. Multiplexed characterization of rationally designed promoter architectures deconstructs combinatorial logic for IPTG-inducible systems. Nature Communications. 12: 325. PMID 33436562 DOI: 10.1038/s41467-020-20094-3   
2021 Ke Z, Zhou Y, Jiang W, Zhang M, Wang H, Ren Y, Qiu J, Cheng M, Hong Q. McbG, a LysR family transcriptional regulator activates the gene cluster involved in the upstream pathway of carbaryl degradation in sp. XWY-1. Applied and Environmental Microbiology. PMID 33579686 DOI: 10.1128/AEM.02970-20   
2021 Sarkar A, Mishra P, Kahveci T. Data perturbation and recovery of time series gene expression data. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 33566765 DOI: 10.1109/TCBB.2021.3058342   
2021 Cheng M, Pei D, He X, Liu Y, Zhu P, Yan X. Hydrolytic dehalogenation operon of 4-chlorobenzoate is transcriptionally regulated by the TetR-type repressor FcbR and its ligand 4-chlorobenzoyl-CoA. Applied and Environmental Microbiology. PMID 33397703 DOI: 10.1128/AEM.02652-20   
2021 Xie B, Khoyratty TE, Abu-Shah E, F Cespedes P, MacLean AJ, Pirgova G, Hu Z, Ahmed AA, Dustin ML, Udalova IA, Arnon TI. The Zinc Finger Protein Zbtb18 Represses Expression of Class I Phosphatidylinositol 3-Kinase Subunits and Inhibits Plasma Cell Differentiation. Journal of Immunology (Baltimore, Md. : 1950). PMID 33608456 DOI: 10.4049/jimmunol.2000367   
2021 Morral N, Liu S, Conteh AM, Chu X, Wang Y, Dong XC, Liu Y, Linnemann AK, Wan J. Aberrant gene expression induced by a high fat diet is linked to H3K9 acetylation in the promoter-proximal region. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. 194691. PMID 33556624 DOI: 10.1016/j.bbagrm.2021.194691   
2021 Chen HQ, Chen DJ, Li Y, Han F, Jiang X, Cao J, Liu JY, Liu WB. DNA methylation and hydroxymethylation associated with gene expression regulatory network during 3-methylcholanthrene induced lung cell malignant transformation. The Science of the Total Environment. 771: 144839. PMID 33545462 DOI: 10.1016/j.scitotenv.2020.144839   
2021 Brown MA, Dotson GA, Ronquist S, Emons G, Rajapakse I, Ried T. TCF7L2 silencing results in altered gene expression patterns accompanied by local genomic reorganization. Neoplasia (New York, N.Y.). 23: 257-269. PMID 33422939 DOI: 10.1016/j.neo.2020.12.010   
2021 Chia M, Li C, Marques S, Pelechano V, Luscombe NM, van Werven FJ. High-resolution analysis of cell-state transitions in yeast suggests widespread transcriptional tuning by alternative starts. Genome Biology. 22: 34. PMID 33446241 DOI: 10.1186/s13059-020-02245-3