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Results: 1 to 20 of 151

1.

Comparative analysis of the transcriptome across distant species.

Gerstein MB, Rozowsky J, Yan KK, Wang D, Cheng C, Brown JB, Davis CA, Hillier L, Sisu C, Li JJ, Pei B, Harmanci AO, Duff MO, Djebali S, Alexander RP, Alver BH, Auerbach R, Bell K, Bickel PJ, Boeck ME, Boley NP, Booth BW, Cherbas L, Cherbas P, Di C, Dobin A, Drenkow J, Ewing B, Fang G, Fastuca M, Feingold EA, Frankish A, Gao G, Good PJ, Guigó R, Hammonds A, Harrow J, Hoskins RA, Howald C, Hu L, Huang H, Hubbard TJ, Huynh C, Jha S, Kasper D, Kato M, Kaufman TC, Kitchen RR, Ladewig E, Lagarde J, Lai E, Leng J, Lu Z, MacCoss M, May G, McWhirter R, Merrihew G, Miller DM, Mortazavi A, Murad R, Oliver B, Olson S, Park PJ, Pazin MJ, Perrimon N, Pervouchine D, Reinke V, Reymond A, Robinson G, Samsonova A, Saunders GI, Schlesinger F, Sethi A, Slack FJ, Spencer WC, Stoiber MH, Strasbourger P, Tanzer A, Thompson OA, Wan KH, Wang G, Wang H, Watkins KL, Wen J, Wen K, Xue C, Yang L, Yip K, Zaleski C, Zhang Y, Zheng H, Brenner SE, Graveley BR, Celniker SE, Gingeras TR, Waterston R.

Nature. 2014 Aug 28;512(7515):445-8. doi: 10.1038/nature13424.

PMID:
25164755
[PubMed - in process]
2.

Diversity of miRNAs, siRNAs, and piRNAs across 25 Drosophila cell lines.

Wen J, Mohammed J, Bortolamiol-Becet D, Tsai H, Robine N, Westholm JO, Ladewig E, Dai Q, Okamura K, Flynt AS, Zhang D, Andrews J, Cherbas L, Kaufman TC, Cherbas P, Siepel A, Lai EC.

Genome Res. 2014 Jul;24(7):1236-50. doi: 10.1101/gr.161554.113.

PMID:
24985917
[PubMed - in process]
Free PMC Article
3.

Diversity and dynamics of the Drosophila transcriptome.

Brown JB, Boley N, Eisman R, May GE, Stoiber MH, Duff MO, Booth BW, Wen J, Park S, Suzuki AM, Wan KH, Yu C, Zhang D, Carlson JW, Cherbas L, Eads BD, Miller D, Mockaitis K, Roberts J, Davis CA, Frise E, Hammonds AS, Olson S, Shenker S, Sturgill D, Samsonova AA, Weiszmann R, Robinson G, Hernandez J, Andrews J, Bickel PJ, Carninci P, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Lai EC, Oliver B, Perrimon N, Graveley BR, Celniker SE.

Nature. 2014 Aug 28;512(7515):393-9.

PMID:
24670639
[PubMed - in process]
4.

Probing the boundaries of orthology: the unanticipated rapid evolution of Drosophila centrosomin.

Eisman RC, Kaufman TC.

Genetics. 2013 Aug;194(4):903-26. doi: 10.1534/genetics.113.152546. Epub 2013 Jun 7.

PMID:
23749319
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

The generation of chromosomal deletions to provide extensive coverage and subdivision of the Drosophila melanogaster genome.

Cook RK, Christensen SJ, Deal JA, Coburn RA, Deal ME, Gresens JM, Kaufman TC, Cook KR.

Genome Biol. 2012;13(3):R21. doi: 10.1186/gb-2012-13-3-r21.

PMID:
22445104
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

The developmental transcriptome of Drosophila melanogaster.

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.

Nature. 2011 Mar 24;471(7339):473-9. doi: 10.1038/nature09715. Epub 2010 Dec 22.

PMID:
21179090
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Identification of functional elements and regulatory circuits by Drosophila modENCODE.

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.

Science. 2010 Dec 24;330(6012):1787-97. doi: 10.1126/science.1198374. Epub 2010 Dec 22.

PMID:
21177974
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

The transcriptional diversity of 25 Drosophila cell lines.

Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, Eads BD, Carlson JW, Landolin JM, Kapranov P, Dumais J, Samsonova A, Choi JH, Roberts J, Davis CA, Tang H, van Baren MJ, Ghosh S, Dobin A, Bell K, Lin W, Langton L, Duff MO, Tenney AE, Zaleski C, Brent MR, Hoskins RA, Kaufman TC, Andrews J, Graveley BR, Perrimon N, Celniker SE, Gingeras TR, Cherbas P.

Genome Res. 2011 Feb;21(2):301-14. doi: 10.1101/gr.112961.110. Epub 2010 Dec 22.

PMID:
21177962
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Genome-wide analysis of promoter architecture in Drosophila melanogaster.

Hoskins RA, Landolin JM, Brown JB, Sandler JE, Takahashi H, Lassmann T, Yu C, Booth BW, Zhang D, Wan KH, Yang L, Boley N, Andrews J, Kaufman TC, Graveley BR, Bickel PJ, Carninci P, Carlson JW, Celniker SE.

Genome Res. 2011 Feb;21(2):182-92. doi: 10.1101/gr.112466.110. Epub 2010 Dec 22.

PMID:
21177961
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

A molecularly defined duplication set for the X chromosome of Drosophila melanogaster.

Venken KJ, Popodi E, Holtzman SL, Schulze KL, Park S, Carlson JW, Hoskins RA, Bellen HJ, Kaufman TC.

Genetics. 2010 Dec;186(4):1111-25. doi: 10.1534/genetics.110.121285. Epub 2010 Sep 27.

PMID:
20876565
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

A new resource for characterizing X-linked genes in Drosophila melanogaster: systematic coverage and subdivision of the X chromosome with nested, Y-linked duplications.

Cook RK, Deal ME, Deal JA, Garton RD, Brown CA, Ward ME, Andrade RS, Spana EP, Kaufman TC, Cook KR.

Genetics. 2010 Dec;186(4):1095-109. doi: 10.1534/genetics.110.123265. Epub 2010 Sep 27.

PMID:
20876560
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Hox genes: studies from the 20th to the 21st century. Foreword.

Kaufman TC.

Adv Exp Med Biol. 2010;689:v-vii. No abstract available.

PMID:
20795317
[PubMed - indexed for MEDLINE]
13.

Insights into aging through measurements of the Drosophila proteome as a function of temperature.

Robinson RA, Kellie JF, Kaufman TC, Clemmer DE.

Mech Ageing Dev. 2010 Sep;131(9):584-90. doi: 10.1016/j.mad.2010.08.004. Epub 2010 Aug 21.

PMID:
20732347
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

New research resources at the Bloomington Drosophila Stock Center.

Cook KR, Parks AL, Jacobus LM, Kaufman TC, Matthews KA.

Fly (Austin). 2010 Jan-Mar;4(1):88-91. Epub 2010 Jan 15.

PMID:
20160480
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

In situ hybridization of large milkweed bug (Oncopeltus) tissues.

Liu P, Kaufman TC.

Cold Spring Harb Protoc. 2009 Aug;2009(8):pdb.prot5262. doi: 10.1101/pdb.prot5262. No abstract available.

PMID:
20147238
[PubMed - indexed for MEDLINE]
16.

Dissection and fixation of large milkweed bug (Oncopeltus) embryos.

Liu P, Kaufman TC.

Cold Spring Harb Protoc. 2009 Aug;2009(8):pdb.prot5261. doi: 10.1101/pdb.prot5261. No abstract available.

PMID:
20147237
[PubMed - indexed for MEDLINE]
17.

Morphology and husbandry of the large milkweed bug, Oncopeltus fasciatus.

Liu P, Kaufman TC.

Cold Spring Harb Protoc. 2009 Aug;2009(8):pdb.emo127. doi: 10.1101/pdb.emo127. No abstract available.

PMID:
20147229
[PubMed - indexed for MEDLINE]
18.

Stable isotope labeling and label-free proteomics of Drosophila parkin null mutants.

Xun Z, Kaufman TC, Clemmer DE.

J Proteome Res. 2009 Oct;8(10):4500-10. doi: 10.1021/pr9006238.

PMID:
19705877
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Centrosomin: a complex mix of long and short isoforms is required for centrosome function during early development in Drosophila melanogaster.

Eisman RC, Phelps MA, Kaufman TC.

Genetics. 2009 Aug;182(4):979-97. doi: 10.1534/genetics.109.103887. Epub 2009 Jun 15.

PMID:
19528326
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Cytological investigation of the mechanism of parthenogenesis in Drosophila mercatorum.

Eisman R, Kaufman TC.

Fly (Austin). 2007 Nov-Dec;1(6):317-29. Epub 2007 Nov 12.

PMID:
18820446
[PubMed - indexed for MEDLINE]
Free Article

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