DNA Sequencing and Genomics Core

Publications

DNA Sequencing and Genomics Core
Jun Zhu, Ph.D.

Histone H2B ubiquitin ligase RNF20 is required for MLL-rearranged leukemia.
Wang E, Kawaoka S, Yu M, Shi J, Ni T, Yang W, Zhu J, Roeder RG, Vakoc CR.
Proc Natl Acad Sci U S A. 2013 Mar 5;110(10):3901-6.
[Text Abstract on PubMed]

Identification of an ABCB1 (P-glycoprotein)-positive carfilzomib-resistant myeloma subpopulation by the pluripotent stem cell fluorescent dye CDy1.
Hawley TS, Riz I, Yang W, Wakabayashi Y, Depalma L, Chang YT, Peng W, Zhu J, Hawley RG.
Am J Hematol. 2013 Jan 22;.
[Text Abstract on PubMed]

H2A.Z Facilitates Access of Active and Repressive Complexes to Chromatin in Embryonic Stem Cell Self-Renewal and Differentiation.
Hu G, Cui K, Northrup D, Liu C, Wang C, Tang Q, Ge K, Levens D, Crane-Robinson C, Zhao K.
Cell Stem Cell. 2013 Feb 7;12(2):180-92.
[Text Abstract on PubMed]

The Cytokines IL-21 and GM-CSF Have Opposing Regulatory Roles in the Apoptosis of Conventional Dendritic Cells.
Wan CK, Oh J, Li P, West EE, Wong EA, Andraski AB, Spolski R, Yu ZX, He J, Kelsall BL, Leonard WJ.
Immunity. 2013 Feb 26;.
[Text Abstract on PubMed]

c-Myc is a universal amplifier of expressed genes in lymphocytes and embryonic stem cells.
Nie Z, Hu G, Wei G, Cui K, Yamane A, Resch W, Wang R, Green DR, Tessarollo L, Casellas R, Zhao K, Levens D.
Cell. 2012 Sep 28;151(1):68-79.
[Text Abstract on PubMed]

BATF-JUN is critical for IRF4-mediated transcription in T cells.
Li P, Spolski R, Liao W, Wang L, Murphy TL, Murphy KM, Leonard WJ.
Nature. 2012 Oct 25;490(7421):543-6.
[Text Abstract on PubMed]

Integrative analysis of the zinc finger transcription factor Lame duck in the Drosophila myogenic gene regulatory network.
Busser BW, Huang D, Rogacki KR, Lane EA, Shokri L, Ni T, Gamble CE, Gisselbrecht SS, Zhu J, Bulyk ML, Ovcharenko I, Michelson AM.
Proc. Natl. Acad. Sci. U.S.A. 2012 Nov 26;.
[Text Abstract on PubMed]

Characterization of genome-wide enhancer-promoter interactions reveals co-expression of interacting genes and modes of higher order chromatin organization.
Chepelev I, Wei G, Wangsa D, Tang Q, Zhao K.
Cell Res. 2012 Mar;22(3):490-503.
[Text Abstract on PubMed]

Molecular mechanism underlying the regulatory specificity of a Drosophila homeodomain protein that specifies myoblast identity.
Busser BW, Shokri L, Jaeger SA, Gisselbrecht SS, Singhania A, Berger MF, Zhou B, Bulyk ML, Michelson AM.
Development. 2012 Mar;139(6):1164-74.
[Text Abstract on PubMed]

Nuclear miRNA regulates the mitochondrial genome in the heart.
Das S, Ferlito M, Kent OA, Fox-Talbot K, Wang R, Liu D, Raghavachari N, Yang Y, Wheelan SJ, Murphy E, Steenbergen C.
Circ. Res. 2012 Jun 8;110(12):1596-603.
[Text Abstract on PubMed]

MicroRNA-27b is a regulatory hub in lipid metabolism and is altered in dyslipidemia.
Vickers KC, Shoucri BM, Levin MG, Wu H, Pearson DS, Osei-Hwedieh D, Collins FS, Remaley AT, Sethupathy P.
Hepatology. 2012 Jul 6;.
[Text Abstract on PubMed]

Two forkhead transcription factors regulate the division of cardiac progenitor cells by a Polo-dependent pathway.
Ahmad SM, Tansey TR, Busser BW, Nolte MT, Jeffries N, Gisselbrecht SS, Rusan NM, Michelson AM.
Dev. Cell. 2012 Jul 17;23(1):97-111.
[Text Abstract on PubMed]

Gene expression analysis of whole blood, peripheral blood mononuclear cells, and lymphoblastoid cell lines from the Framingham Heart Study.
Joehanes R, Johnson AD, Barb JJ, Raghavachari N, Liu P, Woodhouse KA, O'Donnell CJ, Munson PJ, Levy D.
Physiol. Genomics. 2012 Jan 18;44(1):59-75.
[Text Abstract on PubMed]

A novel molecular signature for elevated tricuspid regurgitation velocity in sickle cell disease.
Desai AA, Zhou T, Ahmad H, Zhang W, Mu W, Trevino S, Wade MS, Raghavachari N, Kato GJ, Peters-Lawrence MH, Thiruvoipati T, Turner K, Artz N, Huang Y, Patel AR, Yuan JX, Gordeuk VR, Lang RM, Garcia JG, Machado RF.
Am. J. Respir. Crit. Care Med. 2012 Aug 15;186(4):359-68.
[Text Abstract on PubMed]

Critical Role of STAT5 transcription factor tetramerization for cytokine responses and normal immune function.
Lin JX, Li P, Liu D, Jin HT, He J, Ata Ur Rasheed M, Rochman Y, Wang L, Cui K, Liu C, Kelsall BL, Ahmed R, Leonard WJ.
Immunity. 2012 Apr 20;36(4):586-99.
[Text Abstract on PubMed]

A systematic comparison and evaluation of high density exon arrays and RNA-seq technology used to unravel the peripheral blood transcriptome of sickle cell disease.
Raghavachari N, Barb J, Yang Y, Liu P, Woodhouse K, Levy D, O'Donnell CJ, Munson PJ, Kato GJ.
BMC Med Genomics. 2012;5:28.
[Text Abstract on PubMed]

Expression of miRNAs and their cooperative regulation of the pathophysiology in traumatic brain injury.
Hu Z, Yu D, Almeida-Suhett C, Tu K, Marini AM, Eiden L, Braga MF, Zhu J, Li Z.
PLoS ONE. 2012;7(6):e39357.
[Text Abstract on PubMed]

Genome-wide mapping of nucleosomes in yeast using paired-end sequencing.
Cole HA, Howard BH, Clark DJ.
Meth. Enzymol. 2012;513:145-68.
[Text Abstract on PubMed]

Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level.
Rach EA, Winter DR, Benjamin AM, Corcoran DL, Ni T, Zhu J, Ohler U.
PLoS Genet. 2011;7(1):e1001274.
[Text Abstract on PubMed]

Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum.
López-Barragán MJ, Lemieux J, Quiñones M, Williamson KC, Molina-Cruz A, Cui K, Barillas-Mury C, Zhao K, Su XZ.
BMC Genomics. 2011;12:587.
[Text Abstract on PubMed]

The prevalence and regulation of antisense transcripts in Schizosaccharomyces pombe.
Ni T, Tu K, Wang Z, Song S, Wu H, Xie B, Scott KC, Grewal SI, Gao Y, Zhu J.
PLoS ONE. 2010;5(12):e15271.
[Text Abstract on PubMed]