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18 Article(s) on File
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ErbB4 regulation of a thalamic reticular nucleus circuit for sensory selection
Ahrens S,
Jaramillo S,
Yu K,
Ghosh S,
Hwang G,
Paik R,
Lai C,
He M,
Huang ZJ,
Li B

Nature Neuroscience
  (0): Dec 15 2014   Nlm
[Abstract]
[DOI] [Full Text]

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 KG,
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 Research
  21 (2): 301-314; 2011   Elsevier PMC3032933
[Abstract]
[DOI]

Oxygenase Domain of Drosophila melanogaster Nitric Oxide Synthase: Unique Kinetic Parameters Enable a More Efficient NO Release
Ray SS,
Tejero J,
Wang ZQ,
Dutta T,
Bhattacharjee A,
Regulski MR,
Tully T,
Ghosh S,
Stuehr DJ

Biochemistry
  46 (42): 11857-11864; Oct 23 2007  
[Abstract]
[DOI] [Full Text] [PDF]

Reductase Domain of Drosophila melanogaster Nitric-Oxide Synthase: Redox Transformations, Regulation, and Similarity to Mammalian Homologues
Ray SS,
Sengupta R,
Tiso M,
Haque MM,
Sahoo R,
Konas DW,
Aulak K,
Regulski MR,
Tully T,
Stuehr DJ,
Ghosh S

Biochemistry
  46 (42): 11865-11873; Oct 23 2007  
[Abstract]
[DOI] [Full Text] [PDF]

RNA maps reveal new RNA classes and a possible function for pervasive transcription
Kapranov P,
Cheng J,
Dike S,
Nix DA,
Duttagupta R,
Willingham AT,
Stadler PF,
Hertel J,
Hackermüller J,
Hofacker IL,
Bell I,
Cheung E,
Drenkow J,
Dumais E,
Patel S,
Helt G,
Ganesh M,
Ghosh S,
Piccolboni A,
Sementchenko V,
Tammana H,
Gingeras TR

Science
  316 (5830): 1484-1488; 2007  
[Abstract]
[DOI]

Differential analysis for high density tiling microarray data
Ghosh S,
Hirsch HA,
Sekinger EA,
Kapranov P,
Struhl K,
Gingeras TR

BMC Bioinformatics
  8 (0): 2007  
[Abstract]
[DOI] [Full Text]

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
Birney E,
Stamatoyannopoulos JA,
Dutta A,
Guigó R,
Gingeras TR,
Margulies EH,
Weng Z,
Snyder M,
Dermitzakis ET,
Thurman RE,
Kuehn MS,
Taylor CM,
Neph S,
Koch CM,
Asthana S,
Malhotra A,
Adzhubei I,
Greenbaum JA,
Andrews RM,
Flicek P,
Boyle PJ,
Cao H,
Carter NP,
Clelland GK,
Davis S,
Day N,
Dhami P,
Dillon SC,
Dorschner MO,
Fiegler H,
Giresi PG,
Goldy J,
Hawrylycz M,
Haydock A,
Humbert R,
James KD,
Johnson BE,
Johnson EM,
Frum TT,
Rosenzweig ER,
Karnani N,
Lee K,
Lefebvre GC,
Navas PA,
Neri F,
Parker SC,
Sabo PJ,
Sandstrom R,
Shafer A,
Vetrie D,
Weaver M,
Wilcox S,
Yu M,
Collins FS,
Dekker J,
Lieb JD,
Tullius TD,
Crawford GE,
Sunyaev S,
Noble WS,
Dunham I,
Denoeud F,
Reymond A,
Kapranov P,
Rozowsky J,
Zheng D,
Castelo R,
Frankish A,
Harrow J,
Ghosh S,
Sandelin A,
Hofacker IL,
Baertsch R,
Keefe D,
Dike S,
Cheng J,
Hirsch HA,
Sekinger EA,
Lagarde J,
Abril JF,
Shahab A,
Flamm C,
Fried C,
Hackermüller J,
Hertel J,
Lindemeyer M,
Missal K,
Tanzer A,
Washietl S,
Korbel J,
Emanuelsson O,
Pedersen JS,
Holroyd N,
Taylor R,
Swarbreck D,
Matthews N,
Dickson MC,
Thomas DJ,
Weirauch MT,
Gilbert J,
Drenkow J,
Bell I,
Zhao X,
Srinivasan KG,
Sung WK,
Ooi HS,
Chiu KP,
Foissac S,
Alioto T,
Brent M,
Pachter L,
Tress ML,
Valencia A,
Choo SW,
Choo CY,
Ucla C,
Manzano C,
Wyss C,
Cheung E,
Clark TG,
Brown JB,
Ganesh M,
Patel S,
Tammana H,
Chrast J,
Henrichsen CN,
Kai C,
Kawai J,
Nagalakshmi U,
Wu J,
Lian Z,
Lian J,
Newburger P,
Zhang X,
Bickel P,
Mattick JS,
Carninci P,
Hayashizaki Y,
Weissman S,
Hubbard T,
Myers RM,
Rogers J,
Stadler PF,
Lowe TM,
Wei CL,
Ruan Y,
Struhl K,
Gerstein M,
Antonarakis SE,
Fu Y,
Green ED,
Karaöz U,
Siepel A,
Taylor J,
Liefer LA,
Wetterstrand KA,
Good PJ,
Feingold EA,
Guyer MS,
Cooper GM,
Asimenos G,
Dewey CN,
Hou M,
Nikolaev S,
Montoya-Burgos JI,
Löytynoja A,
Whelan S,
Pardi F,
Massingham T,
Huang H,
Zhang NR,
Holmes I,
Mullikin JC,
Ureta-Vidal A,
Paten B,
Seringhaus M,
Church D,
Rosenbloom K,
Kent WJ,
Stone EA,
Batzoglou S,
Goldman N,
Hardison RC,
Haussler D,
Miller W,
Sidow A,
Trinklein ND,
Zhang ZD,
Barrera L,
Stuart R,
King DC,
Ameur A,
Enroth S,
Bieda MC,
Kim J,
Bhinge AA,
Jiang N,
Liu J,
Yao F,
Vega VB,
Lee CW,
Ng P,
Yang A,
Moqtaderi Z,
Zhu Z,
Xu X,
Squazzo S,
Oberley MJ,
Inman D,
Singer MA,
Richmond TA,
Munn KJ,
Rada-Iglesias A,
Wallerman O,
Komorowski J,
Fowler JC,
Couttet P,
Bruce AW,
Dovey OM,
Ellis PD,
Langford CF,
Nix DA,
Euskirchen G,
Hartman S,
Urban AE,
Kraus P,
Van Calcar S,
Heintzman N,
Hoon Kim T,
Wang K,
Qu C,
Hon G,
Luna R,
Glass CK,
Rosenfeld MG,
Aldred SF,
Cooper SJ,
Halees A,
Lin JM,
Shulha HP,
Xu M,
Haidar JN,
Yu Y,
Iyer VR,
Green RD,
Wadelius C,
Farnham PJ,
Ren B,
Harte RA,
Hinrichs AS,
Trumbower H,
Clawson H,
Hillman-Jackson J,
Zweig AS,
Smith K,
Thakkapallayil A,
Barber G,
Kuhn RM,
Karolchik D,
Armengol L,
Bird CP,
De Bakker PI,
Kern AD,
Lopez-Bigas N,
Martin JD,
Stranger BE,
Woodroffe A,
Davydov E,
Dimas A,
Eyras E,
Hallgrímsdóttir IB,
Huppert J,
Zody MC,
Abecasis GR,
Estivill X,
Bouffard GG,
Guan X,
Hansen NF,
Idol JR,
Maduro VV,
Maskeri B,
McDowell JC,
Park M,
Thomas PJ,
Young AC,
Blakesley RW,
Muzny DM,
Sodergren E,
Wheeler DA,
Worley KC,
Jiang H,
Weinstock GM,
Gibbs RA,
Graves T,
Fulton R,
Mardis ER,
Wilson RK,
Clamp M,
Cuff J,
Gnerre S,
Jaffe DB,
Chang JL,
Lindblad-Toh K,
Lander ES,
Koriabine M,
Nefedov M,
Osoegawa K,
Yoshinaga Y,
Zhu B,
De Jong PJ

Nature
  447 (7146): 799-816; 2007  
[Abstract]
[DOI] [Full Text]

Biological function of unannotated transcription during the early development of Drosophila melanogaster
Manak JR,
Dike S,
Sementchenko V,
Kapranov P,
Biemar F,
Long J,
Cheng J,
Bell I,
Ghosh S,
Piccolboni A,
Gingeras TR

Nature Genetics
  38 (10): 1151-1158; 2006  
[Abstract]
[DOI] [Full Text]

Transcriptional landscape of the human and fly genomes: Nonlinear and multifunctional modular model of transcriptomes
Willingham AT,
Dike S,
Cheng J,
Manak JR,
Bell I,
Cheung E,
Drenkow J,
Dumais E,
Duttagupta R,
Ganesh M,
Ghosh S,
Helt G,
Nix D,
Piccolboni A,
Sementchenko V,
Tammana H,
Kapranov P,
Gingeras TR

  71 (0): 101-110; 2006  
[Abstract]
[Full Text]

Temporal profile of replication of human chromosomes
Jeon Y,
Bekiranov S,
Karnani N,
Kapranov P,
Ghosh S,
MacAlpine D,
Lee C,
Deog SH,
Gingeras TR,
Dutta A

Proceedings of the National Academy of Sciences of the United States of America
  102 (18): 6419-6424; 2005  
[Abstract]
[DOI] [Full Text]

Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution
Cheng J,
Kapranov P,
Drenkow J,
Dike S,
Brubaker S,
Patel S,
Long J,
Stern D,
Tammana H,
Helt G,
Sementchenko V,
Piccolboni A,
Bekiranov S,
Bailey DK,
Ganesh M,
Ghosh S,
Bell I,
Gerhard DS,
Gingeras TR

Science
  308 (5725): 1149-1154; 2005  
[Abstract]
[DOI]

The ENCODE (ENCyclopedia of DNA Elements) Project
Feingold EA,
Good PJ,
Guyer MS,
Kamholz S,
Liefer L,
Wetterstrand K,
Collins FS,
Gingeras TR,
Kampa D,
Sekinger EA,
Cheng J,
Hirsch H,
Ghosh S,
Zhu Z,
Patel S,
Piccolboni A,
Yang A,
Tammana H,
Bekiranov S,
Kapranov P,
Harrison R,
Church G,
Struhl K,
Ren B,
Kim TH,
Barrera LO,
Qu C,
van Calcar S,
Luna R,
Glass CK,
Rosenfeld MG,
Guigo R,
Antonarakis SE,
Birney E,
Brent M,
Pachter L,
Reymond A,
Dermitzakis ET,
Dewey C,
Keefe D,
Denoeud F,
Lagarde J,
Ashurst J,
Hubbard T,
Wesselink JJ,
Castelo R,
Eyras E,
Myers RM,
Sidow A,
Batzoglou S,
Trinklein ND,
Hartman SJ,
Aldred SF,
Anton E,
Schroeder DI,
Marticke SS,
Nguyen L,
Schmutz J,
Grimwood J,
Dickson M,
Cooper GM,
Stone EA,
Asimenos G,
Brudno M,
Dutta A,
Karnani N,
Taylor CM,
Kim HK,
Robins G,
Stamatoyannopoulos G,
Stamatoyannopoulos JA,
Dorschner M,
Sabo P,
Hawrylycz M,
Humbert R,
Wallace J,
Yu M,
Navas PA,
McArthur M,
Noble WS,
Dunham I,
Koch CM,
Andrews RM,
Clelland GK,
Wilcox S,
Fowler JC,
James KD,
Groth P,
Dovey OM,
Ellis PD,
Wraight VL,
Mungall AJ,
Dhami P,
Fiegler H,
Langford CF,
Carter NP,
Vetrie D,
Snyder M,
Euskirchen G,
Urban AE,
Nagalakshmi U,
Rinn J,
Popescu G,
Bertone P,
Hartman S,
Rozowsky J,
Emanuelsson O,
Royce T,
Chung S,
Gerstein M,
Lian Z,
Lian J,
Nakayama Y,
Weissman S,
Stolc V,
Tongprasit W,
Sethi H,
Jones S,
Marra M,
Shin H,
Schein J,
Clamp M,
Lindblad-Toh K,
Chang J,
Jaffe DB,
Kamal M,
Lander ES,
Mikkelsen TS,
Vinson J,
Zody MC,
de Jong PJ,
Osoegawa K,
Nefedov M,
Zhu B,
Baxevanis AD,
Wolfsberg TG,
Crawford GE,
Whittle J,
Holt IE,
Vasicek TJ,
Zhou D,
Luo S,
Green ED,
Bouffard GG,
Margulies EH,
Portnoy ME,
Hansen NF,
Thomas PJ,
McDowell JC,
Maskeri B,
Young AC,
Idol JR,
Blakesley RW,
Schuler G,
Miller W,
Hardison R,
Elnitski L,
Shah P,
Salzberg SL,
Pertea M,
Majoros WH,
Haussler D,
Thomas D,
Rosenbloom KR,
Clawson H,
Siepel A,
Kent WJ,
Weng Z,
Jin S,
Halees A,
Burden H,
Karaoz U,
Fu Y,
Yu Y,
Ding C,
Cantor CR,
Kingston RE,
Dennis J,
Green RD,
Singer MA,
Richmond TA,
Norton JE,
Farnham PJ,
Oberley MJ,
Inman DR,
McCormick MR,
Kim H,
Middle CL,
Pirrung MC,
Fu XD,
Kwon YS,
Ye Z,
Dekker J,
Tabuchi TM,
Gheldof N,
Dostie J,
Harvey SC

Science
  306 (5696): 636-640; 2004  
[Abstract]
[DOI] [Full Text]

Characterization of Drosophila nitric oxide synthase: a biochemical study
Sengupta R,
Sahoo R,
Mukherjee S,
Regulski M,
Tully T,
Stuehr DJ,
Ghosh S

Biochemical and Biophysical Research Communications
  306 (2): 590-597; Jun 2003  
[Abstract]
[Full Text]

Issues of variability, carryover contamination, and detection in 3SR-based assays
Fahy E,
Biery M,
Goulden M,
Ghosh SS,
Gingeras TR

PCR Methods and Applications
  3 (5): S83-S94; 1994  
[Full Text]

A SPECTROFLUOROMETRIC METHOD FOR MEASUREMENT OF RESTRICTION ENDONUCLEASE ACTIVITY BASED ON FLUORESCENCE POLARIZATION
Gingeras TR,
Ghosh S,
Blumeyer K,
Eis P,
Millar D

Journal of Cellular Biochemistry
  (0): 173-173; Feb 8 1993  
[Full Text]

Analysis of substrate specificity of the PaeR7 endonuclease: Effect of base methylation on the kinetics of cleavage
Ghosh SS,
Obermiller PS,
Kwoh TJ,
Gingeras TR

Nucleic Acids Research
  18 (17): 5063-5068; 1990  
[Abstract]
[Full Text]

Detection of human immunodeficiency virus type 1 in AIDS patients using amplification-mediated hybridization analyses: Reproducibility and quantitative limitations
Davis GR,
Blumeyer K,
DiMichele LJ,
Whitfield KM,
Chappelle H,
Riggs N,
Ghosh SS,
Kao PM,
Fahy E,
Kwoh DY,
Guatelli JC,
Spector SA,
Richman DD,
Gingeras TR

Journal of Infectious Diseases
  162 (1): 13-20; 1990  
[Abstract]
[Full Text]

COVALENT ATTACHMENT OF NUCLEIC-ACIDS TO SOLID SUPPORTS - CHEMISTRIES OF COUPLING AND HYBRIDIZATION CHARACTERISTICS
Ghosh SS,
Gingeras TR,
Davis GR,
Musso GF,
Kwoh DY,
Kao PM

Abstracts of Papers of the American Chemical Society
  194 (0): 68-MBTD; Aug 30 1987  
[Full Text]


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