Works by Huihuang Yan

Results: 38

Intergenic Locations of Rice Centromeric Chromatin.

Published in:

PLoS Biology, 2008, v. 6, n. 11, p. e286, doi. 10.1371/journal.pbio.0060286

By:

Huihuang Yan;
Talbert, Paul B.;
Hye-Ran Lee;
Jett, Jamie;
Henikoff, Steven;
Chen, Feng;
Jiming Jiang

Publication type:

Article

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

Published in:

Cancers, 2024, v. 16, n. 13, p. 2450, doi. 10.3390/cancers16132450

By:

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

Publication type:

Article

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

Published in:

Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-87890-9

By:

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

Publication type:

Article

Distinct epigenetic landscapes underlie the pathobiology of pancreatic cancer subtypes.

Published in:

Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-04383-6

By:

Lomberk, Gwen;
Blum, Yuna;
Nicolle, Rémy;
Nair, Asha;
Gaonkar, Krutika Satish;
Marisa, Laetitia;
Mathison, Angela;
Zhifu Sun;
Huihuang Yan;
Elarouci, Nabila;
Armenoult, Lucile;
Ayadi, Mira;
Ordog, Tamas;
Jeong-Heon Lee;
Oliver, Gavin;
Klee, Eric;
Moutardier, Vincent;
Gayet, Odile;
Bian, Benjamin;
Duconseil, Pauline

Publication type:

Article

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

Published in:

Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-03031-3

By:

Karakashev, Sergey;
Hengrui Zhu;
Shuai Wu;
Yuhki Yokoyama;
Bitler, Benjamin G.;
Park, Pyoung-Hwa;
Jeong-Heon Lee;
Kossenkov, Andrew V.;
Gaonkar, Krutika Satish;
Huihuang Yan;
Drapkin, Ronny;
Conejo-Garcia, Jose R.;
Speicher, David W.;
Ordog, Tamas;
Rugang Zhang

Publication type:

Article

CAP-miRSeq: a comprehensive analysis pipeline for microRNA sequencing data.

Published in:

BMC Genomics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2164-15-423

By:

Zhifu Sun;
Evans, Jared;
Bhagwate, Aditya;
Middha, Sumit;
Bockol, Matthew;
Huihuang Yan;
Kocher, Jean-Pierre

Publication type:

Article

Tumor mutational load predicts time to first treatment in chronic lymphocytic leukemia (CLL) and monoclonal B‐cell lymphocytosis beyond the CLL international prognostic index.

Published in:

American Journal of Hematology, 2020, v. 95, n. 8, p. 906, doi. 10.1002/ajh.25831

By:

Kleinstern, Geffen;
O'Brien, Daniel R.;
Li, Xing;
Tian, Shulan;
Kabat, Brian F.;
Rabe, Kari G.;
Norman, Aaron D.;
Yan, Huihuang;
Vachon, Celine M.;
Boddicker, Nicholas J.;
Call, Timothy G.;
Parikh, Sameer A.;
Bruins, Laura;
Bonolo de Campos, Cecilia;
Leis, Jose F.;
Shanafelt, Tait D.;
Ding, Wei;
Cerhan, James R.;
Kay, Neil E.;
Slager, Susan L.

Publication type:

Article

Euchromatic Subdomains in Rice Centromeres Are Associated with Genes and Transcription.

Published in:

Plant Cell, 2011, v. 23, n. 11, p. 4054, doi. 10.1105/tpc.111.090043

By:

Wu, Yufeng;
Kikuchi, Shinji;
Yan, Huihuang;
Zhang, Wenli;
Rosenbaum, Heidi;
Iniguez, A. Leonardo;
Jiang, Jiming

Publication type:

Article

Genomic characterization of chronic lymphocytic leukemia in patients of African ancestry.

Published in:

Blood Cancer Journal, 2025, v. 15, n. 1, p. 1, doi. 10.1038/s41408-024-01207-3

By:

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.

Publication type:

Article

Chronic lymphocytic leukemia (CLL) risk is mediated by multiple enhancer variants within CLL risk loci.

Published in:

Human Molecular Genetics, 2020, v. 29, n. 16, p. 2761, doi. 10.1093/hmg/ddaa165

By:

Huihuang Yan;
Shulan Tian;
Kleinstern, Geffen;
Zhiquan Wang;
Jeong-Heon Lee;
Boddicker, Nicholas J.;
Cerhan, James R.;
Kay, Neil E.;
Braggio, Esteban;
Slager, Susan L.

Publication type:

Article

Inherited variants at 3q13.33 and 3p24.1 are associated with risk of diffuse large B-cell lymphoma and implicate immune pathways.

Published in:

Human Molecular Genetics, 2020, v. 29, n. 1, p. 70, doi. 10.1093/hmg/ddz228

By:

Kleinstern, Geffen;
Yan, Huihuang;
Hildebrandt, Michelle A T;
Vijai, Joseph;
Berndt, Sonja I;
Ghesquières, Hervé;
McKay, James;
Wang, Sophia S;
Nieters, Alexandra;
Ye, Yuanqing;
Monnereau, Alain;
Brooks-Wilson, Angela R;
Lan, Qing;
Melbye, Mads;
Jackson, Rebecca D;
Teras, Lauren R;
Purdue, Mark P;
Vajdic, Claire M;
Vermeulen, Roel C H;
Giles, Graham G

Publication type:

Article

Clonal dynamics of Richter transformation in chronic lymphocytic leukemia.

Published in:

Hematological Oncology, 2024, v. 42, n. 4, p. 1, doi. 10.1002/hon.3282

By:

Wang, Hanyin;
Tian, Shulan;
Secreto, Charla R.;
Sinha, Sutapa;
Shi, Min;
Call, Timothy;
Wang, Yucai;
Parikh, Sameer A.;
Kenderian, Saad S.;
He, Rong;
Leis, Jose F.;
VanDyke, Daniel L.;
Klee, Eric W.;
Slager, Susan L.;
Braggio, Esteban;
Yan, Huihuang;
Ding, Wei

Publication type:

Article

Differential transcriptomic profiling in ibrutinib‐naïve versus ibrutinib‐resistant Richter syndrome.

Published in:

Hematological Oncology, 2022, v. 40, n. 2, p. 302, doi. 10.1002/hon.2950

By:

Wang, Hanyin;
Tian, Shulan;
Zhao, Qing;
Blumenschein, Wendy;
Yearley, Jennifer H.;
Secreto, Charla R.;
Sinha, Sutapa;
Call, Timothy G.;
Wang, Yucai;
Parikh, Sameer A.;
Kenderian, Saad S.;
He, Rong;
Leis, Jose F.;
Shi, Min;
Van Dyke, Daniel L.;
Kay, Neil E.;
Slager, Susan L.;
Braggio, Esteban;
Yan, Huihuang;
Ding, Wei

Publication type:

Article

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

Published in:

Genetics, 2007, v. 176, n. 2, p. 749, doi. 10.1534/genetics.107.071902

By:

Neumann, Pavel;
Huihuang Yan;
Jiang, Jiming

Publication type:

Article

Development and Applications of a Complete Set of Rice Telotrisomics.

Published in:

Genetics, 2001, v. 157, n. 1, p. 361, doi. 10.1093/genetics/157.1.361

By:

Zhukuan Cheng;
Huihuang Yan

Publication type:

Article

RBBP4-p300 axis modulates expression of genes essential for cell survival and is a potential target for therapy in glioblastoma.

Published in:

Neuro-Oncology, 2022, v. 24, n. 8, p. 1261, doi. 10.1093/neuonc/noac051

By:

Mladek, Ann C;
Yan, Huihuang;
Tian, Shulan;
Decker, Paul A;
Burgenske, Danielle M;
Bakken, Katrina;
Hu, Zeng;
He, Lihong;
Connors, Margaret A;
Carlson, Brett L;
Wilson, Jonathan;
Bommi-Reddy, Archana;
Conery, Andy;
Eckel-Passow, Jeanette E;
Sarkaria, Jann N;
Kitange, Gaspar J

Publication type:

Article

Two high-risk susceptibility loci at 6p25.3 and 14q32.13 for Waldenström macroglobulinemia.

Published in:

Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-06541-2

By:

McMaster, Mary L.;
Berndt, Sonja I.;
Zhang, Jianqing;
Slager, Susan L.;
Li, Shengchao Alfred;
Vajdic, Claire M.;
Smedby, Karin E.;
Yan, Huihuang;
Birmann, Brenda M.;
Brown, Elizabeth E.;
Smith, Alex;
Kleinstern, Geffen;
Fansler, Mervin M.;
Mayr, Christine;
Zhu, Bin;
Chung, Charles C.;
Park, Ju-Hyun;
Burdette, Laurie;
Hicks, Belynda D.;
Hutchinson, Amy

Publication type:

Article

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

Published in:

PLoS ONE, 2019, v. 14, n. 4, p. 1, doi. 10.1371/journal.pone.0214723

By:

Tian, Shulan;
Peng, Shuxia;
Kalmbach, Michael;
Gaonkar, Krutika S.;
Bhagwate, Aditya;
Ding, Wei;
Eckel-Passow, Jeanette;
Yan, Huihuang;
Slager, Susan L.

Publication type:

Article

Genome-Wide Epigenetic Studies in Human Disease: A Primer on -Omic Technologies.

Published in:

American Journal of Epidemiology, 2016, v. 183, n. 2, p. 96, doi. 10.1093/aje/kwv187

By:

Huihuang Yan;
Tian, Shulan;
Slager, Susan L.;
Zhifu Sun;
Ordog, Tamas

Publication type:

Article

Soybean bacterial artificial chromosome contigs anchored with RFLPs: insights into genome duplication and gene clustering.

Published in:

Genome, 2004, v. 47, n. 2, p. 361, doi. 10.1139/G03-141

By:

Mudge, Joann;
Huihuang, Yan;
Denny, Roxanne L.;
Howe, Dana K.;
Danesh, Dariush;
Marek, Laura F.;
Retzel, Ernie;
Shoemaker, Randy C.;
Young, Nevin D.

Publication type:

Article

Comparative genomic analysis of sequences sampled from a small region on soybean (Glycine max) molecular linkage group G.

Published in:

Genome, 2002, v. 45, n. 4, p. 634, doi. 10.1139/g02-027

By:

Foster-Hartnett, Dawn;
Mudge, Joann;
Larsen, Dana;
Danesh, Dariush;
Yan, Huihuang;
Denny, Roxanne;
Peñuela, Silvia;
Young, Nevin D

Publication type:

Article

Soybean genomic survey: BAC-end sequences near RFLP and SSR markers.

Published in:

Genome, 2001, v. 44, n. 4, p. 572, doi. 10.1139/g01-052

By:

Marek, Laura Fredrick;
Mudge, Joann;
Darnielle, Laura;
Grant, David;
Hanson, Nadja;
Paz, Margie;
Huihuang, Yan;
Denny, Roxanne;
Larson, Karin;
Foster-Hartnett, Dawn;
Cooper, Anne;
Danesh, Dariush;
Larsen, Dana;
Schmidt, Tina;
Staggs, Rod;
Crow, John A;
Retzel, Ernest;
Young, Nevin D;
Shoemaker, Randy C

Publication type:

Article

Characterization of euploid backcross progenies derived from interspecific hybrids between Oryza sativa and O. eichingeri by restriction fragment length polymorphism (RFLP) analysis and genomic in situ hybridization (GISH).

Published in:

Genome, 2001, v. 44, n. 1, p. 86, doi. 10.1139/g00-086

By:

Yan, Huihuang;
Liu, Guoqing;
Cheng, Zhukuan;
Min, Shaokai;
Zhu, Lihuang

Publication type:

Article

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

Published in:

BMC Genomics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12864-019-5639-8

By:

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

Publication type:

Article

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

Published in:

BMC Bioinformatics, 2014, v. 15, n. 1, p. 1, doi. 10.1186/1471-2105-15-280

By:

Huihuang Yan;
Evans, Jared;
Kalmbach, Mike;
Moore, Raymond;
Middha, Sumit;
Luban, Stanislav;
Liguo Wang;
Bhagwate, Aditya;
Ying Li;
Zhifu Sun;
Xianfeng Chen;
Kocher, Jean-Pierre A.

Publication type:

Article

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

Published in:

Molecular Biology & Evolution, 2009, v. 26, n. 12, p. 2877, doi. 10.1093/molbev/msp208

By:

Hirsch, Cory D.;
Wu, Yufeng;
Yan, Huihuang;
Jiang, Jiming

Publication type:

Article

Rotor imbalance detection and quantification in wind turbines via vibration analysis.

Published in:

Wind Engineering, 2022, v. 46, n. 1, p. 3, doi. 10.1177/0309524X21999841

By:

Xu, Jin;
Ding, Xian;
Gong, Yongli;
Wu, Ning;
Yan, Huihuang

Publication type:

Article

MACE: model based analysis of ChIP-exo.

Published in:

Nucleic Acids Research, 2014, v. 42, n. 20, p. e156, doi. 10.1093/nar/gku846

By:

Wang, Liguo;
Chen, Junsheng;
Wang, Chen;
Uusküla-Reimand, Liis;
Chen, Kaifu;
Medina-Rivera, Alejandra;
Young, Edwin J.;
Zimmermann, Michael T.;
Yan, Huihuang;
Sun, Zhifu;
Zhang, Yuji;
Wu, Stephen T.;
Huang, Haojie;
Wilson, Michael D.;
Kocher, Jean-Pierre A.;
Li, Wei

Publication type:

Article

Rice as a model for centromere and heterochromatin research.

Published in:

Chromosome Research, 2007, v. 15, n. 1, p. 77, doi. 10.1007/s10577-006-1104-z

By:

Huihuang Yan;
Jiming Jiang

Publication type:

Article

Cobind: quantitative analysis of the genomic overlaps.

Published in:

Bioinformatics Advances, 2023, v. 3, n. 1, p. 1, doi. 10.1093/bioadv/vbad104

By:

Ma, Tao;
Guo, Lingyun;
Yan, Huihuang;
Wang, Liguo

Publication type:

Article

A Multidisciplinary Biospecimen Bank of Renal Cell Carcinomas Compatible with Discovery Platforms at Mayo Clinic, Scottsdale, Arizona.

Published in:

PLoS ONE, 2015, v. 10, n. 7, p. 1, doi. 10.1371/journal.pone.0132831

By:

Ho, Thai H.;
Nateras, Rafael Nunez;
Yan, Huihuang;
Park, Jin G.;
Jensen, Sally;
Borges, Chad;
Lee, Jeong Heon;
Champion, Mia D.;
Tibes, Raoul;
Bryce, Alan H.;
Carballido, Estrella M.;
Todd, Mark A.;
Joseph, Richard W.;
Wong, William W.;
Parker, Alexander S.;
Stanton, Melissa L.;
Castle, Erik P.

Publication type:

Article

An analytical workflow for accurate variant discovery in highly divergent regions.

Published in:

BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-3045-z

By:

Shulan Tian;
Huihuang Yan;
Neuhauser, Claudia;
Slager, Susan L.

Publication type:

Article

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

Published in:

BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1279-z

By:

Shulan Tian;
Huihuang Yan;
Kalmbach, Michael;
Slager, Susan L.

Publication type:

Article

Genome-scale Analysis of <i>Escherichia coli</i> FNR Reveals Complex Features of Transcription Factor Binding.

Published in:

PLoS Genetics, 2013, v. 9, n. 6, p. 1, doi. 10.1371/journal.pgen.1003565

By:

Myers, Kevin S.;
Yan, Huihuang;
Ong, Irene M.;
Chung, Dongjun;
Liang, Kun;
Tran, Frances;
Keleş, Sündüz;
Landick, Robert;
Kiley, Patricia J.

Publication type:

Article

Editorial: Clinical Genome Sequencing: Bioinformatics Challenges and Key Considerations.

Published in:

2022

By:

Tian, Shulan;
Tu, Zheng Jin;
Yan, Huihuang;
Klee, Eric W.

Publication type:

Editorial

Genome-wide mapping of cytosine methylation revealed dynamic DNA methylation patterns associated with genes and centromeres in rice.

Published in:

Plant Journal, 2010, v. 63, n. 3, p. 353, doi. 10.1111/j.1365-313X.2010.04246.x

By:

Yan, Huihuang;
Kikuchi, Shinji;
Neumann, Pavel;
Zhang, Wenli;
Wu, Yufeng;
Chen, Feng;
Jiang, Jiming

Publication type:

Article

8q24 clear cell renal cell carcinoma germline variant is associated with VHL mutation status and clinical aggressiveness.

Published in:

2020

By:

Eckel-Passow, Jeanette E.;
Yan, Huihuang;
Kosel, Matthew L.;
Serie, Daniel;
Decker, Paul A.;
Jenkins, Robert B.;
Costello, Brian;
Leibovich, Bradley;
Ho, Thai H.;
Parker, Alexander

Publication type:

journal article

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

Published in:

Briefings in Bioinformatics, 2018, v. 19, n. 5, p. 893, doi. 10.1093/bib/bbx037

By:

Tian, Shulan;
Yan, Huihuang;
Klee, Eric W;
Kalmbach, Michael;
Slager, Susan L

Publication type:

Article