U.S. Department of Health and Human Services

Laboratory of Cellular and Developmental Biology

Jurrien Dean, M.D., Chief

​Publications

A selection of recent and significant publications can be viewed below.

Publications
Avella MA, Baibakov B, Dean J. A single domain of the ZP2 zona pellucida protein mediates gamete recognition in mice and humans.J Cell Biol. 2014 Jun 23; 205 (2014 Jun 23; 6; 205) :801-9. [Full Text/Abstract]
King MR, Matzat LH, Dale RK, Lim SJ, Lei EP. The RNA-binding protein Rumpelstiltskin antagonizes gypsy chromatin insulator function in a tissue-specific manner. . [Full Text/Abstract]
Názer E, Lei EP. Modulation of chromatin modifying complexes by noncoding RNAs in trans.Curr Opin Genet Dev. 2/14/2014; 25C (25C; 2/14/2014) :68-73. [Full Text/Abstract]
Sturgill D, Malone JH, Sun X, Smith HE, Rabinow L, Samson ML, Oliver B. Design of RNA splicing analysis null models for post hoc filtering of Drosophila head RNA-Seq data with the splicing analysis kit (Spanki).BMC Bioinformatics. ; 14 (14; 1) :320. [Full Text/Abstract]
Matzat LH, Lei EP. Surviving an identity crisis: A revised view of chromatin insulators in the genomics era.Biochim Biophys Acta. 2013 Nov. 1 (2013 Nov. 1) . [Full Text/Abstract]
Matzat LH, Dale RK, Lei EP. Messenger RNA is a functional component of a chromatin insulator complex.EMBO Rep. 2013 Aug 6 (2013 Aug 6) . [Full Text/Abstract]
Ray D, Kazan H, Cook KB, Weirauch MT, Najafabadi HS, Li X, Gueroussov S, Albu M, Zheng H, Yang A, Na H, Irimia M, Matzat LH, Dale RK, Smith SA, Yarosh CA, Kelly SM, Nabet B, Mecenas D, Li W, Laishram RS, Qiao M, Lipshitz HD, Piano F, Corbett AH, Carstens RP, Frey BJ, Anderson RA, Lynch KW, Penalva LO, Lei EP, Fraser AG, Blencowe BJ, Morris QD, Hughes TR. A compendium of RNA-binding motifs for decoding gene regulation.Nature. 2013 Jul 11; 499 (7457; 2013 Jul 11; 499) :172-7. [Full Text/Abstract]
Lim SJ, Boyle PJ, Chinen M, Dale RK, Lei EP. Genome-wide localization of exosome components to active promoters and chromatin insulators in Drosophila.Nucleic Acids Res. 2013 Mar 1; 41 (2013 Mar 1; 41; 5) :2963-80. [Full Text/Abstract]
Matzat LH, Dale RK, Moshkovich N, Lei EP. Tissue-specific regulation of chromatin insulator function.PLoS Genet. 2012 Nov 29; 8 (8; 2012 Nov 29; 11) :e1003069. [Full Text/Abstract]
Junier I, Dale RK, Hou C, Képès F, Dean A. CTCF-mediated transcriptional regulation through cell type-specific chromosome organization in the β-globin locus.Nucleic Acids Res. 2012 Sep; 40 (40; 2012 Sep; 16) :7718-27. [Full Text/Abstract]
Baibakov B, Boggs NA, Yauger B, Baibakov G, Dean J. Human sperm bind to the N-terminal domain of ZP2 in humanized zonae pellucidae in transgenic mice.J. Cell Biol. 2012 Jun 25; 197 (2012 Jun 25; 197; 7) :897-905. [Full Text/Abstract]
Deng W, Lee J, Wang H, Miller J, Reik A, Gregory PD, Dean A, Blobel GA. Controlling long-range genomic interactions at a native locus by targeted tethering of a looping factor.Cell. 2012 Jun 8; 149 (149; 6; 2012 Jun 8) :1233-44. [Full Text/Abstract]
Malone JH, Cho DY, Mattiuzzo NR, Artieri CG, Jiang L, Dale RK, Smith HE, McDaniel J, Munro S, Salit M, Andrews J, Przytycka TM, Oliver B. Mediation of Drosophila autosomal dosage effects and compensation by network interactions.Genome Biol. 2012 Apr 24; 13 (2012 Apr 24; 4; 13) :r28. [Full Text/Abstract]
Bender MA, Ragoczy T, Lee J, Byron R, Telling A, Dean A, Groudine M. The hypersensitive sites of the murine β-globin locus control region act independently to affect nuclear localization and transcriptional elongation.Blood. 2012 Apr 19; 119 (16; 119; 2012 Apr 19) :3820-7. [Full Text/Abstract]
Burkart AD, Xiong B, Baibakov B, Jiménez-Movilla M, Dean J. Ovastacin, a cortical granule protease, cleaves ZP2 in the zona pellucida to prevent polyspermy.J. Cell Biol. 2012 Apr 2; 197 (197; 2012 Apr 2; 1) :37-44. [Full Text/Abstract]
Krivega I, Dean A. Enhancer and promoter interactions-long distance calls.Curr. Opin. Genet. Dev. 2012 Apr; 22 (2; 2012 Apr; 22) :79-85. [Full Text/Abstract]
Avella MA, Dean J. Fertilization with acrosome-reacted mouse sperm: implications for the site of exocytosis.Proc. Natl. Acad. Sci. U.S.A. 2011 Dec 13; 108 (108; 50; 2011 Dec 13) :19843-4. [Full Text/Abstract]
Kiefer CM, Lee J, Hou C, Dale RK, Lee YT, Meier ER, Miller JL, Dean A. Distinct Ldb1/NLI complexes orchestrate γ-globin repression and reactivation through ETO2 in human adult erythroid cells.Blood. 2011 Dec 1; 118 (118; 23; 2011 Dec 1) :6200-8. [Full Text/Abstract]
Deng X, Hiatt JB, Nguyen DK, Ercan S, Sturgill D, Hillier LW, Schlesinger F, Davis CA, Reinke VJ, Gingeras TR, Shendure J, Waterston RH, Oliver B, Lieb JD, Disteche CM. Evidence for compensatory upregulation of expressed X-linked genes in mammals, Caenorhabditis elegans and Drosophila melanogaster.Nat. Genet. 2011 Oct 23; 43 (2011 Oct 23; 43; 12) :1179-85. [Full Text/Abstract]
Lienert F, Wirbelauer C, Som I, Dean A, Mohn F, Schübeler D. Identification of genetic elements that autonomously determine DNA methylation states.Nat. Genet. 2011 Oct 2; 43 (2011 Oct 2; 43; 11) :1091-7. [Full Text/Abstract]
Jiang L, Schlesinger F, Davis CA, Zhang Y, Li R, Salit M, Gingeras TR, Oliver B. Synthetic spike-in standards for RNA-seq experiments.Genome Res. 2011 Sep; 21 (2011 Sep; 21; 9) :1543-51. [Full Text/Abstract]
Moshkovich N, Nisha P, Boyle PJ, Thompson BA, Dale RK, Lei EP. RNAi-independent role for Argonaute2 in CTCF/CP190 chromatin insulator function.Genes Dev. 2011 Aug 15; 25 (25; 2011 Aug 15; 16) :1686-701. [Full Text/Abstract]
Malone JH, Oliver B. Microarrays, deep sequencing and the true measure of the transcriptome.BMC Biol. 2011 May 31; 9 (9; 2011 May 31) :34. [Full Text/Abstract]
Graveley BR, Brooks AN, Carlson JW, Duff MO, Landolin JM, Yang L, Artieri CG, van Baren MJ, Boley N, Booth BW, Brown JB, Cherbas L, Davis CA, Dobin A, Li R, Lin W, Malone JH, Mattiuzzo NR, Miller D, Sturgill D, Tuch BB, Zaleski C, Zhang D, Blanchette M, Dudoit S, Eads B, Green RE, Hammonds A, Jiang L, Kapranov P, Langton L, Perrimon N, Sandler JE, Wan KH, Willingham A, Zhang Y, Zou Y, Andrews J, Bickel PJ, Brenner SE, Brent MR, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Oliver B, Celniker SE. The developmental transcriptome of Drosophila melanogaster.Nature. 2011 Mar 24; 471 (7339; 471; 2011 Mar 24) :473-9. [Full Text/Abstract]
Jimenez-Movilla M, Dean J. ZP2 and ZP3 cytoplasmic tails prevent premature interactions and ensure incorporation into the zona pellucida.J. Cell. Sci. 2011 Mar 15; 124 (124; Pt 6; 2011 Mar 15) :940-50. [Full Text/Abstract]
Yauger B, Boggs NA, Dean J. Human ZP4 is not sufficient for taxon-specific sperm recognition of the zona pellucida in transgenic mice.Reproduction. 2011 Mar; 141 (2011 Mar; 141; 3) :313-9. [Full Text/Abstract]
modENCODE Consortium, Roy S, Ernst J, Kharchenko PV, Kheradpour P, Negre N, Eaton ML, Landolin JM, Bristow CA, Ma L, Lin MF, Washietl S, Arshinoff BI, Ay F, Meyer PE, Robine N, Washington NL, Di Stefano L, Berezikov E, Brown CD, Candeias R, Carlson JW, Carr A, Jungreis I, Marbach D, Sealfon R, Tolstorukov MY, Will S, Alekseyenko AA, Artieri C, Booth BW, Brooks AN, Dai Q, Davis CA, Duff MO, Feng X, Gorchakov AA, Gu T, Henikoff JG, Kapranov P, Li R, MacAlpine HK, Malone J, Minoda A, Nordman J, Okamura K, Perry M, Powell SK, Riddle NC, Sakai A, Samsonova A, Sandler JE, Schwartz YB, Sher N, Spokony R, Sturgill D, van Baren M, Wan KH, Yang L, Yu C, Feingold E, Good P, Guyer M, Lowdon R, Ahmad K, Andrews J, Berger B, Brenner SE, Brent MR, Cherbas L, Elgin SC, Gingeras TR, Grossman R, Hoskins RA, Kaufman TC, Kent W, Kuroda MI, Orr-Weaver T, Perrimon N, Pirrotta V, Posakony JW, Ren B, Russell S, Cherbas P, Graveley BR, Lewis S, Micklem G, Oliver B, Park PJ, Celniker SE, Henikoff S, Karpen GH, Lai EC, MacAlpine DM, Stein LD, White KP, Kellis M. Identification of functional elements and regulatory circuits by Drosophila modENCODE.Science. 2010 Dec 24; 330 (2010 Dec 24; 6012; 330) :1787-97. [Full Text/Abstract]
Li L, Lee JY, Gross J, Song SH, Dean A, Love PE. A requirement for Lim domain binding protein 1 in erythropoiesis.J. Exp. Med. 2010 Nov 22; 207 (207; 12; 2010 Nov 22) :2543-50. [Full Text/Abstract]
Song SH, Kim A, Ragoczy T, Bender MA, Groudine M, Dean A. Multiple functions of Ldb1 required for beta-globin activation during erythroid differentiation.Blood. 2010 Sep 30; 116 (116; 13; 2010 Sep 30) :2356-64. [Full Text/Abstract]