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ArticlesPeer ReviewedFull Text
Super enhancer regulation of cytokine-induced chemokine production in alcoholic hepatitis
Author / Creator:Liu, Mengfei ; Cao, Sheng ; He, Li ; Gao, Jinhang ; Arab, Juan P. ; Cui, Huarui ; Xuan, Weixia ; Gao, Yandong ; Sehrawat, Tejasav S. ; Hamdan, Feda H. ; Ventura-Cots, Meritxell ; Argemi, Josepmaria ; Pomerantz, William C. K. ; Johnsen, Steven A. ; Lee, Jeong-Heon ; Gao, Fei ; Ordog, Tamas ; Mathurin, Philippe ; Revzin, Alexander ; Bataller, Ramon ; Yan, Huihuang ; Shah, Vijay H.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-07, Vol.12 (1), p.4560-14, Article 4560
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Distinct epigenetic landscapes underlie the pathobiology of pancreatic cancer subtypes
Author / Creator:Lomberk, Gwen ; Blum, Yuna ; Nicolle, Rémy ; Nair, Asha ; Gaonkar, Krutika Satish ; Marisa, Laetitia ; Mathison, Angela ; Sun, Zhifu ; Yan, Huihuang ; Elarouci, Nabila ; Armenoult, Lucile ; Ayadi, Mira ; Ordog, Tamas ; Lee, Jeong-Heon ; Oliver, Gavin ; Klee, Eric ; Moutardier, Vincent ; Gayet, Odile ; Bian, Benjamin ; Duconseil, Pauline ; Gilabert, Marine ; Bigonnet, Martin ; Garcia, Stephane ; Turrini, Olivier ; Delpero, Jean-Robert ; Giovannini, Marc ; Grandval, Philippe ; Gasmi, Mohamed ; Secq, Veronique ; De Reyniès, Aurélien ; Dusetti, Nelson ; Iovanna, Juan ; Urrutia, Raul
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-05, Vol.9 (1), p.1978-10, Article 1978
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Genome-scale Analysis of Escherichia coli FNR Reveals Complex Features of Transcription Factor Binding
Author / Creator:Myers, Kevin S. ; Yan, Huihuang ; Ong, Irene M. ; Chung, Dongjun ; Liang, Kun ; Tran, Frances ; Keleş, Sündüz ; Landick, Robert ; Kiley, Patricia J.
Publisher:United States: Public Library of Science
Journal title:PLoS genetics, 2013-06, Vol.9 (6), p.e1003565-e1003565
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Impact of post-alignment processing in variant discovery from whole exome data
Author / Creator:Tian, Shulan ; Yan, Huihuang ; Kalmbach, Michael ; Slager, Susan L.
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2016-10, Vol.17 (1), p.403-403, Article 403
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CARM1-expressing ovarian cancer depends on the histone methyltransferase EZH2 activity
Author / Creator:Karakashev, Sergey ; Zhu, Hengrui ; Wu, Shuai ; Yokoyama, Yuhki ; Bitler, Benjamin G. ; Park, Pyoung-Hwa ; Lee, Jeong-Heon ; Kossenkov, Andrew V. ; Gaonkar, Krutika Satish ; Yan, Huihuang ; Drapkin, Ronny ; Conejo-Garcia, Jose R. ; Speicher, David W. ; Ordog, Tamas ; Zhang, Rugang
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2018-02, Vol.9 (1), p.631-11, Article 631
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Comparative analysis of de novo assemblers for variation discovery in personal genomes
Author / Creator:Tian, Shulan ; Yan, Huihuang ; Klee, Eric W ; Kalmbach, Michael ; Slager, Susan L
Publisher:England: Oxford University Press
Journal title:Briefings in bioinformatics, 2018-09, Vol.19 (5), p.893-904
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Epigenetic alteration contributes to the transcriptional reprogramming in T-cell prolymphocytic leukemia
Author / Creator:Tian, Shulan ; Zhang, Henan ; Zhang, Pan ; Kalmbach, Michael ; Lee, Jeong-Heon ; Ordog, Tamas ; Hampel, Paul J. ; Call, Timothy G. ; Witzig, Thomas E. ; Kay, Neil E. ; Klee, Eric W. ; Slager, Susan L. ; Yan, Huihuang ; Ding, Wei
Publisher:London: Nature Publishing Group UK
Journal title:Scientific reports, 2021-04, Vol.11 (1), p.8318-14, Article 8318
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An analytical workflow for accurate variant discovery in highly divergent regions
Author / Creator:Tian, Shulan ; Yan, Huihuang ; Neuhauser, Claudia ; Slager, Susan L.
Publisher:England: BioMed Central Ltd
Journal title:BMC genomics, 2016-09, Vol.17 (1), p.703-703, Article 703
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HiChIP: a high-throughput pipeline for integrative analysis of ChIP-Seq data
Author / Creator:Yan, Huihuang ; Evans, Jared ; Kalmbach, Mike ; Moore, Raymond ; Middha, Sumit ; Luban, Stanislav ; Wang, Liguo ; Bhagwate, Aditya ; Li, Ying ; Sun, Zhifu ; Chen, Xianfeng ; Kocher, Jean-Pierre A
Publisher:England: BioMed Central Ltd
Journal title:BMC bioinformatics, 2014-08, Vol.15 (1), p.280-280, Article 280
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Enhanced and controlled chromatin extraction from FFPE tissues and the application to ChIP-seq
Author / Creator:Zhong, Jian ; Ye, Zhenqing ; Clark, Chad R. ; Lenz, Samuel W. ; Nguyen, Justin H. ; Yan, Huihuang ; Robertson, Keith D. ; Farrugia, Gianrico ; Zhang, Zhiguo ; Ordog, Tamas ; Lee, Jeong-Heon
Publisher:England: BioMed Central Ltd
Journal title:BMC genomics, 2019-03, Vol.20 (1), p.249-249, Article 249
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Intergenic Locations of Rice Centromeric Chromatin
Author / Creator:Yan, Huihuang ; Talbert, Paul B ; Lee, Hye-Ran ; Jett, Jamie ; Henikoff, Steven ; Chen, Feng ; Jiang, Jiming
Publisher:United States: Public Library of Science
Journal title:PLoS biology, 2008-11, Vol.6 (11), p.e286-e286
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Identification of factors associated with duplicate rate in ChIP-seq data
Author / Creator:Tian, Shulan ; Peng, Shuxia ; Kalmbach, Michael ; Gaonkar, Krutika S. ; Bhagwate, Aditya ; Ding, Wei ; Eckel-Passow, Jeanette ; Yan, Huihuang ; Slager, Susan L.
Publisher:United States: Public Library of Science
Journal title:PloS one, 2019-04, Vol.14 (4), p.e0214723-e0214723
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Utility of Targeted Sequencing Compared to FISH for Detection of Chronic Lymphocytic Leukemia Copy Number Alterations
Author / Creator:Wiedmeier-Nutor, J. Erin ; McCabe, Chantal E. ; O’Brien, Daniel R. ; Jessen, Erik ; Bonolo de Campos, Cecilia ; Boddicker, Nicholas J. ; Griffin, Rosalie ; Allmer, Cristine ; Rabe, Kari G. ; Cerhan, James R. ; Parikh, Sameer A. ; Kay, Neil E. ; Yan, Huihuang ; Van Dyke, Daniel L. ; Slager, Susan L. ; Braggio, Esteban
Publisher:Switzerland: MDPI AG
Journal title:Cancers, 2024-07, Vol.16 (13), p.2450
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The Centromeric Retrotransposons of Rice Are Transcribed and Differentially Processed by RNA Interference
Author / Creator:Neumann, Pavel ; Yan, Huihuang ; Jiang, Jiming
Publisher:United States: Genetics Soc America
Journal title:Genetics (Austin), 2007-06, Vol.176 (2), p.749-761
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Genomic characterization of chronic lymphocytic leukemia in patients of African ancestry
Author / Creator:Bonolo de Campos, Cecilia ; McCabe, Chantal E. ; Bruins, Laura A. ; O’Brien, Daniel R. ; Brown, Sochilt ; Tschumper, Renee C. ; Allmer, Cristine ; Zhu, Yuan Xiao ; Rabe, Kari G. ; Parikh, Sameer A. ; Kay, Neil E. ; Yan, Huihuang ; Cerhan, James R. ; Allan, John N. ; Furman, Richard R. ; Weinberg, J. Brice ; Brander, Danielle M. ; Jelinek, Diane F. ; Chesi, Marta ; Slager, Susan L. ; Braggio, Esteban
Publisher:London: Nature Publishing Group UK
Journal title:Blood cancer journal (New York), 2025-02, Vol.15 (1), p.14-8, Article 14
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ChIP-seq in studying epigenetic mechanisms of disease and promoting precision medicine: progresses and future directions
Author / Creator:Yan, Huihuang ; Tian, Shulan ; Slager, Susan L ; Sun, Zhifu
Publisher:England: Future Medicine Ltd
Journal title:Epigenomics, 2016-09, Vol.8 (9), p.1239-1258
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Epigenetic Alterations Are Associated With Gastric Emptying Disturbances in Diabetes Mellitus
Author / Creator:Puthanmadhom Narayanan, Susrutha ; Lee, Jeong-Heon ; Bhagwate, Aditya ; Kuwelker, Saatchi ; Yan, Huihuang ; Ordog, Tamas ; Bharucha, Adil E.
Publisher:United States: Wolters Kluwer
Journal title:Clinical and translational gastroenterology, 2020-03, Vol.11 (3), p.e00136-e00136
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Lineage-Specific Adaptive Evolution of the Centromeric Protein CENH3 in Diploid and Allotetraploid Oryza Species
Author / Creator:Hirsch, Cory D ; Wu, Yufeng ; Huihuang Yan ; Jiang, Jiming
Publisher:Oxford: Oxford University Press
Journal title:Molecular biology and evolution, 2009-12, Vol.26 (12), p.2877-2885
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Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species
Author / Creator:Lee, H.R ; Zhang, W ; Langdon, T ; Jin, W ; Yan, H ; Cheng, Z ; Jiang, J
Publisher:United States: National Academy of Sciences
Journal title:Proceedings of the National Academy of Sciences - PNAS, 2005-08, Vol.102 (33), p.11793-11798
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B cell receptor signaling drives APOBEC3 expression via direct enhancer regulation in chronic lymphocytic leukemia B cells
Author / Creator:Wang, Zhiquan ; Yan, Huihuang ; Boysen, Justin C. ; Secreto, Charla R. ; Tschumper, Renee C. ; Ali, Dania ; Guo, Qianqian ; Zhong, Jian ; Zhou, Jiaqi ; Gan, Haiyun ; Yu, Chuanhe ; Jelinek, Diane F. ; Slager, Susan L. ; Parikh, Sameer A. ; Braggio, Esteban ; Kay, Neil E.
Publisher:London: Nature Publishing Group UK
Journal title:Blood cancer journal (New York), 2022-07, Vol.12 (7), p.99-11, Article 99
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Super enhancer regulation of cytokine-induced chemokine production in alcoholic hepatitis

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Distinct epigenetic landscapes underlie the pathobiology of pancreatic cancer subtypes

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Genome-scale Analysis of Escherichia coli FNR Reveals Complex Features of Transcription Factor Binding

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Impact of post-alignment processing in variant discovery from whole exome data

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CARM1-expressing ovarian cancer depends on the histone methyltransferase EZH2 activity

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Comparative analysis of de novo assemblers for variation discovery in personal genomes

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Epigenetic alteration contributes to the transcriptional reprogramming in T-cell prolymphocytic leukemia

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An analytical workflow for accurate variant discovery in highly divergent regions

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HiChIP: a high-throughput pipeline for integrative analysis of ChIP-Seq data

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Enhanced and controlled chromatin extraction from FFPE tissues and the application to ChIP-seq

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Intergenic Locations of Rice Centromeric Chromatin

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Identification of factors associated with duplicate rate in ChIP-seq data

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Utility of Targeted Sequencing Compared to FISH for Detection of Chronic Lymphocytic Leukemia Copy Number Alterations

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The Centromeric Retrotransposons of Rice Are Transcribed and Differentially Processed by RNA Interference

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Genomic characterization of chronic lymphocytic leukemia in patients of African ancestry

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ChIP-seq in studying epigenetic mechanisms of disease and promoting precision medicine: progresses and future directions

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Epigenetic Alterations Are Associated With Gastric Emptying Disturbances in Diabetes Mellitus

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Lineage-Specific Adaptive Evolution of the Centromeric Protein CENH3 in Diploid and Allotetraploid Oryza Species

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Chromatin immunoprecipitation cloning reveals rapid evolutionary patterns of centromeric DNA in Oryza species

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B cell receptor signaling drives APOBEC3 expression via direct enhancer regulation in chronic lymphocytic leukemia B cells

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