aprasads comparative_genomics [34 articles]

PLoS Computational Biology, Vol. 3, No. 12. (1 December 2007), e254.

by Saurabh Asthana, Mikhail Roytberg, John Stamatoyannopoulos, Shamil Sunyaev

posted to methods mcs conservation comparative_genomics by aprasad on 2008-05-13 15:42:29 as along with 4 people djkt GustavoLacerda nklee maximilianh

Genome Res. (5 November 2007), gr.6761107.

by Webb Miller, Kate Rosenbloom, Ross C Hardison, Minmei Hou, James Taylor, Brian Raney, Richard Burhans, David C King, Robert Baertsch, Daniel Blankenberg, Kosakovsky, Anton Nekrutenko, Belinda Giardine, Robert S Harris, Svitlana Tyekucheva, Mark Diekhans, Thomas H Pringle, William J Murphy, Arthur Lesk, George M Weinstock, Kerstin Lindblad-Toh, Richard A Gibbs, Eric S Lander, Adam Siepel, David Haussler, James W Kent

posted to alignment comparative_genomics ucsc by aprasad on 2007-12-11 14:46:01 as along with 10 people jyuh AaronDarling dchughes nklee maximilianh idonaldson fpattyn gjuggler clearbluespring joavah

Nat Protoc, Vol. 2, No. 11. (2007), pp. 3022-3030.

by WJ Murphy, SJ O'Brien

posted to comparative_genomics map methods primer tools by aprasad on 2007-11-26 15:09:24 as

J Biol Chem, Vol. 282, No. 22. (1 June 2007), pp. 15941-15945.

by X Long, JM Miano

posted to cns comparative_genomics regulatory by aprasad on 2007-08-13 16:33:48 as

by Arjun B Prasad, Anthony Antonellis

posted to cns comparative_genomics exactplus functional mcs regulatory signature by aprasad on 2007-08-06 22:22:03 as

Genome Res, Vol. 13, No. 1. (January 2003), pp. 1-12.

by KA Frazer, L Elnitski, DM Church, I Dubchak, RC Hardison

posted to cns comparative_genomics regulatory by aprasad on 2007-07-31 14:05:13 as

Hum Mol Genet (21 August 2006)

by Hong Sun, Geir Skogerbø, Runsheng Chen

posted to cns comparative_genomics regulatory spacing by aprasad on 2007-04-18 15:33:48 as along with 1 person and 1 group dpollard EisenLab

Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)

by C Dieterich, MW Franz, M Vingron

posted to comparative_genomics non-coding regulatory tools by aprasad on 2007-02-12 18:01:55 as

Genome Res (19 October 2006)

by Victor X X Jin, Alina Rabinovich, Sharon L L Squazzo, Roland Green, Peggy J J Farnham

posted to regulatory enhancer comparative_genomics by aprasad on 2007-01-10 23:41:44 as along with 2 people jfr idonaldson

Theoretical Population Biology, Vol. 70, No. 3. (November 2006), pp. 364-375.

by Gyorgy Abrusan, Hans-Jurgen Krambeck

posted to comparative_genomics genome_evolution repeats retrotransposon by aprasad on 2006-12-18 19:52:33 as

Nucleic Acids Res (12 August 2006)

by Nihar Sheth, Xavier Roca, Michelle L L Hastings, Ted Roeder, Adrian R R Krainer, Ravi Sachidanandam

posted to comparative_genomics genomics splicing whole_genome by aprasad on 2006-10-20 14:45:24 as along with 3 people and 2 groups indigoviolet penka ankur_iitg EisenLab Nie

BMC Bioinformatics, Vol. 6 (2005)

by MS Rosenberg

posted to alignment comparative_genomics evolution by aprasad on 2006-04-10 19:16:26 as along with 2 people and 2 groups dpollard cisevol EisenLab cis-regulatory-evolution

Genome Res, Vol. 15, No. 10. (October 2005), pp. 1451-1455.

by B Giardine, C Riemer, RC Hardison, R Burhans, L Elnitski, P Shah, Y Zhang, D Blankenberg, I Albert, J Taylor, W Miller, WJ Kent, A Nekrutenko

posted to comparative_genomics galaxy genome tools by aprasad on 2006-04-10 19:16:08 as along with 1 person jyuh

Annu Rev Genet, Vol. 39 (2005), pp. 309-338.

by EV Koonin

posted to comparative_genomics review by aprasad on 2006-04-10 17:44:01 as along with 6 people and 3 groups cerca BioNica fhsantanna dchughes penka jdiezperezj Nie G4ID Genetics-of-Gambling

PLoS Biol, Vol. 1, No. 2. (November 2003)

by RC Hardison

posted to comparative_genomics genome_evolution review by aprasad on 2006-04-10 17:34:40 as along with 4 people and 1 group Neeperando axelon beatrizfernandez nklee Microbial-Ecology

Human Molecular Genetics, Vol. 15, No. 2. (15 January 2006), pp. 259-271.

by Anthony Antonellis, William R Bennett, Arjun B Prasad, Shih-Queen Lee-Lin, Eric D Green, Derek Paisley, Robert N Kelsh, William J Pavan, Andrew Ward

posted to cns comparative_genomics exactplus by aprasad on 2006-03-31 22:29:05 as along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling

Hum Mol Genet, Vol. 15, No. 2. (15 January 2006), pp. 259-271.

by A Antonellis, WR Bennett, TR Menheniott, AB Prasad, SQ Lee-Lin, ED Green, D Paisley, RN Kelsh, WJ Pavan, A Ward

posted to cns comparative_genomics element enhancer exactplus functional regulatory signature by aprasad on 2006-02-13 21:06:27 as

Chromosome Research, Vol. 13, No. 7. (October 2005), pp. 707-715.

by Zhihua Jiang, Jennifer Michal, Jenna Melville, Heather Baltzer

posted to comparative_genomics mammal map synteny by aprasad on 2006-02-13 21:00:21 as

Int Rev Cytol, Vol. 247 (2005), pp. 165-221.

by DA Kramerov, NS Vassetzky

posted to comparative_genomics repeats retrotransposon review by aprasad on 2006-02-13 20:17:42 as along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling

Hum Mol Genet, Vol. 14, No. 20. (15 October 2005), pp. 3057-3063.

by N Ahituv, S Prabhakar, F Poulin, EM Rubin, O Couronne

posted to cns comparative_genomics element functional regulatory signal by aprasad on 2006-02-13 20:16:12 as along with 1 person maximilianh

Nature, Vol. 437, No. 7055., pp. 69-87.

by The

posted to chimp comparative_genomics genome sequence whole_genome by aprasad on 2005-12-19 22:41:09 as along with 9 people and 2 groups cannin chrn great_apes indigoviolet dullhunk djkt JeffR100 Garamonfok iris42 biodiversity_conservation EisenLab

Nature, Vol. 428, No. 6982. (1 April 2004), pp. 493-521.

by RA Gibbs, GM Weinstock, ML Metzker, DM Muzny, EJ Sodergren, S Scherer, G Scott, D Steffen, KC Worley, PE Burch, G Okwuonu, S Hines, L Lewis, C DeRamo, O Delgado, S Dugan-Rocha, G Miner, M Morgan, A Hawes, R Gill, Celera, RA Holt, MD Adams, PG Amanatides, H Baden-Tillson, M Barnstead, S Chin, CA Evans, S Ferriera, C Fosler, A Glodek, Z Gu, D Jennings, CL Kraft, T Nguyen, CM Pfannkoch, C Sitter, GG Sutton, JC Venter, T Woodage, D Smith, HM Lee, E Gustafson, P Cahill, A Kana, L Doucette-Stamm, K Weinstock, K Fechtel, RB Weiss, DM Dunn, ED Green, RW Blakesley, GG Bouffard, PJ De Jong, K Osoegawa, B Zhu, M Marra, J Schein, I Bosdet, C Fjell, S Jones, M Krzywinski, C Mathewson, A Siddiqui, N Wye, J McPherson, S Zhao, CM Fraser, J Shetty, S Shatsman, K Geer, Y Chen, S Abramzon, WC Nierman, PH Havlak, R Chen, KJ Durbin, A Egan, Y Ren, XZ Song, B Li, Y Liu, X Qin, S Cawley, KC Worley, AJ Cooney, LM D'Souza, K Martin, JQ Wu, ML Gonzalez-Garay, AR Jackson, KJ Kalafus, MP McLeod, A Milosavljevic, D Virk, A Volkov, DA Wheeler, Z Zhang, JA Bailey, EE Eichler, E Tuzun, E Birney, E Mongin, A Ureta-Vidal, C Woodwark, E Zdobnov, P Bork, M Suyama, D Torrents, M Alexandersson, BJ Trask, JM Young, H Huang, H Wang, H Xing, S Daniels, D Gietzen, J Schmidt, K Stevens, U Vitt, J Wingrove, F Camara, M Mar Albà, JF Abril, R Guigo, A Smit, I Dubchak, EM Rubin, O Couronne, A Poliakov, N Hübner, D Ganten, C Goesele, O Hummel, T Kreitler, YA Lee, J Monti, H Schulz, H Zimdahl, H Himmelbauer, H Lehrach, HJ Jacob, S Bromberg, J Gullings-Handley, MI Jensen-Seaman, AE Kwitek, J Lazar, D Pasko, PJ Tonellato, S Twigger, CP Ponting, JM Duarte, S Rice, L Goodstadt, SA Beatson, RD Emes, EE Winter, C Webber, P Brandt, G Nyakatura, M Adetobi, F Chiaromonte, L Elnitski, P Eswara, RC Hardison, M Hou, D Kolbe, K Makova, W Miller, A Nekrutenko, C Riemer, S Schwartz, J Taylor, S Yang, Y Zhang, K Lindpaintner, TD Andrews, M Caccamo, M Clamp, L Clarke, V Curwen, R Durbin, E Eyras, SM Searle, GM Cooper, S Batzoglou, M Brudno, A Sidow, EA Stone, JC Venter, BA Payseur, G Bourque, C López-Otín, XS Puente, K Chakrabarti, S Chatterji, C Dewey, L Pachter, N Bray, VB Yap, A Caspi, G Tesler, PA Pevzner, D Haussler, KM Roskin, R Baertsch, H Clawson, TS Furey, AS Hinrichs, D Karolchik, WJ Kent, KR Rosenbloom, H Trumbower, M Weirauch, DN Cooper, PD Stenson, B Ma, M Brent, M Arumugam, D Shteynberg, RR Copley, MS Taylor, H Riethman, U Mudunuri, J Peterson, M Guyer, A Felsenfeld, S Old, S Mockrin, F Collins,

posted to comparative_genomics genome rat sequence whole_genome by aprasad on 2005-12-19 22:27:51 as along with 5 people and 4 groups ccots rvosa dchughes djkt stajich FAB-lab G4ID Genetics-of-Gambling Berkeley Mycology

Nature, Vol. 432, No. 7018. (9 December 2004), pp. 695-716.

by LW Hillier, W Miller, E Birney, W Warren, RC Hardison, CP Ponting, P Bork, DW Burt, MA Groenen, ME Delany, JB Dodgson, AT Chinwalla, PF Cliften, SW Clifton, KD Delehaunty, C Fronick, RS Fulton, TA Graves, C Kremitzki, D Layman, V Magrini, JD McPherson, TL Miner, P Minx, WE Nash, MN Nhan, JO Nelson, LG Oddy, CS Pohl, J Randall-Maher, SM Smith, JW Wallis, SP Yang, MN Romanov, CM Rondelli, B Paton, J Smith, D Morrice, L Daniels, HG Tempest, L Robertson, JS Masabanda, DK Griffin, A Vignal, V Fillon, L Jacobbson, S Kerje, L Andersson, RP Crooijmans, J Aerts, JJ van der Poel, H Ellegren, RB Caldwell, SJ Hubbard, DV Grafham, AM Kierzek, SR McLaren, IM Overton, H Arakawa, KJ Beattie, Y Bezzubov, PE Boardman, JK Bonfield, MD Croning, RM Davies, MD Francis, SJ Humphray, CE Scott, RG Taylor, C Tickle, WR Brown, J Rogers, JM Buerstedde, SA Wilson, L Stubbs, I Ovcharenko, L Gordon, S Lucas, MM Miller, H Inoko, T Shiina, J Kaufman, J Salomonsen, K Skjoedt, GK Wong, J Wang, B Liu, J Wang, J Yu, H Yang, M Nefedov, M Koriabine, PJ Dejong, L Goodstadt, C Webber, NJ Dickens, I Letunic, M Suyama, D Torrents, C von Mering, EM Zdobnov, K Makova, A Nekrutenko, L Elnitski, P Eswara, DC King, S Yang, S Tyekucheva, A Radakrishnan, RS Harris, F Chiaromonte, J Taylor, J He, M Rijnkels, S Griffiths-Jones, A Ureta-Vidal, MM Hoffman, J Severin, SM Searle, AS Law, D Speed, D Waddington, Z Cheng, E Tuzun, E Eichler, Z Bao, P Flicek, DD Shteynberg, MR Brent, JM Bye, EJ Huckle, S Chatterji, C Dewey, L Pachter, A Kouranov, Z Mourelatos, AG Hatzigeorgiou, AH Paterson, R Ivarie, M Brandstrom, E Axelsson, N Backstrom, S Berlin, MT Webster, O Pourquie, A Reymond, C Ucla, SE Antonarakis, M Long, JJ Emerson, E Betrán, I Dupanloup, H Kaessmann, AS Hinrichs, G Bejerano, TS Furey, RA Harte, B Raney, A Siepel, WJ Kent, D Haussler, E Eyras, R Castelo, JF Abril, S Castellano, F Camara, G Parra, R Guigo, G Bourque, G Tesler, PA Pevzner, A Smit, LA Fulton, ER Mardis, RK Wilson,

posted to bird chicken comparative_genomics genome sequence whole_genome by aprasad on 2005-12-19 22:25:32 as along with 4 people and 4 groups dchughes dullhunk harikrishna djkt hst-bmi Bioinformatics G4ID Genetics-of-Gambling

Nature, Vol. 420, No. 6915. (5 December 2002), pp. 520-562.

by RH Waterston, K Lindblad-Toh, E Birney, J Rogers, JF Abril, P Agarwal, R Agarwala, R Ainscough, M Alexandersson, P An, SE Antonarakis, J Attwood, R Baertsch, J Bailey, K Barlow, S Beck, E Berry, B Birren, T Bloom, P Bork, M Botcherby, N Bray, MR Brent, DG Brown, SD Brown, C Bult, J Burton, J Butler, RD Campbell, P Carninci, S Cawley, F Chiaromonte, AT Chinwalla, DM Church, M Clamp, C Clee, FS Collins, LL Cook, RR Copley, A Coulson, O Couronne, J Cuff, V Curwen, T Cutts, M Daly, R David, J Davies, KD Delehaunty, J Deri, ET Dermitzakis, C Dewey, NJ Dickens, M Diekhans, S Dodge, I Dubchak, DM Dunn, SR Eddy, L Elnitski, RD Emes, P Eswara, E Eyras, A Felsenfeld, GA Fewell, P Flicek, K Foley, WN Frankel, LA Fulton, RS Fulton, TS Furey, D Gage, RA Gibbs, G Glusman, S Gnerre, N Goldman, L Goodstadt, D Grafham, TA Graves, ED Green, S Gregory, R Guigó, M Guyer, RC Hardison, D Haussler, Y Hayashizaki, LW Hillier, A Hinrichs, W Hlavina, T Holzer, F Hsu, A Hua, T Hubbard, A Hunt, I Jackson, DB Jaffe, LS Johnson, M Jones, TA Jones, A Joy, M Kamal, EK Karlsson, D Karolchik, A Kasprzyk, J Kawai, E Keibler, C Kells, WJ Kent, A Kirby, DL Kolbe, I Korf, RS Kucherlapati, EJ Kulbokas, D Kulp, T Landers, JP Leger, S Leonard, I Letunic, R Levine, J Li, M Li, C Lloyd, S Lucas, B Ma, DR Maglott, ER Mardis, L Matthews, E Mauceli, JH Mayer, M McCarthy, WR McCombie, S McLaren, K McLay, JD McPherson, J Meldrim, B Meredith, JP Mesirov, W Miller, TL Miner, E Mongin, KT Montgomery, M Morgan, R Mott, JC Mullikin, DM Muzny, WE Nash, JO Nelson, MN Nhan, R Nicol, Z Ning, C Nusbaum, MJ O'Connor, Y Okazaki, K Oliver, E Overton-Larty, L Pachter, G Parra, KH Pepin, J Peterson, P Pevzner, R Plumb, CS Pohl, A Poliakov, TC Ponce, CP Ponting, S Potter, M Quail, A Reymond, BA Roe, KM Roskin, EM Rubin, AG Rust, R Santos, V Sapojnikov, B Schultz, J Schultz, MS Schwartz, S Schwartz, C Scott, S Seaman, S Searle, T Sharpe, A Sheridan, R Shownkeen, S Sims, JB Singer, G Slater, A Smit, DR Smith, B Spencer, A Stabenau, N Stange-Thomann, C Sugnet, M Suyama, G Tesler, J Thompson, D Torrents, E Trevaskis, J Tromp, C Ucla, A Ureta-Vidal, JP Vinson, AC Von Niederhausern, CM Wade, M Wall, RJ Weber, RB Weiss, MC Wendl, AP West, K Wetterstrand, R Wheeler, S Whelan, J Wierzbowski, D Willey, S Williams, RK Wilson, E Winter, KC Worley, D Wyman, S Yang, SP Yang, EM Zdobnov, MC Zody, ES Lander,

posted to comparative_genomics genome mouse sequence whole_genome by aprasad on 2005-12-19 22:13:07 as along with 17 people and 2 groups OriginalLurch dkulp sdinka Cortel jwortman Dax42 ccots indigoviolet adepace treangen joshuashen djkt stajich olympos hausen yoanjacquemin elfar EisenLab Berkeley Mycology

Nature, Vol. 438, No. 7069., pp. 803-819.

by Kerstin Lindblad-Toh, Claire M Wade, Tarjei S Mikkelsen, Elinor K Karlsson, David B Jaffe, Michael Kamal, Michele Clamp, Jean L Chang, Edward J Kulbokas, Michael C Zody, Evan Mauceli, Xiaohui Xie, Matthew Breen, Robert K Wayne, Elaine A Ostrander, Chris P Ponting, Francis Galibert, Douglas R Smith, Pieter J Dejong, Ewen Kirkness, Pablo Alvarez, Tara Biagi, William Brockman, Jonathan Butler, Chee-Wye Chin, April Cook, James Cuff, Mark J Daly, David Decaprio, Sante Gnerre, Manfred Grabherr, Manolis Kellis, Michael Kleber, Carolyne Bardeleben, Leo Goodstadt, Andreas Heger, Christophe Hitte, Lisa Kim, Klaus-Peter Koepfli, Heidi G Parker, John P Pollinger, Stephen MJ Searle, Nathan B Sutter, Rachael Thomas, Caleb Webber, Eric S Lander

posted to comparative_genomics dog genome genome_size sequence whole_genome by aprasad on 2005-12-19 22:11:03 as along with 6 people and 7 groups easternblot indigoviolet dchughes neveaire mini1000srule djkt Biostatistics Computational-Genomics Bioinformatics EisenLab Neuroscience G4ID Genetics-of-Gambling

Genome Res, Vol. 15, No. 8. (August 2005), pp. 1034-1050.

by A Siepel, G Bejerano, JS Pedersen, AS Hinrichs, M Hou, K Rosenbloom, H Clawson, J Spieth, LW Hillier, S Richards, GM Weinstock, RK Wilson, RA Gibbs, WJ Kent, W Miller, D Haussler

posted to cns comparative_genomics conservation evolution genome_evolution mutation_rate phastcons by aprasad on 2005-12-02 22:15:13 as along with 14 people and 2 groups pradiptaray bpb balajis eckart_bindewald indigoviolet brant adepace djkt olympos sujaikumar Stew cisevol dmc elfar EisenLab cis-regulatory-evolution

Annu Rev Genomics Hum Genet, Vol. 6 (2005), pp. 143-164.

by EA Stone, GM Cooper, A Sidow

posted to comparative_genomics element functional mcs by aprasad on 2005-11-01 21:27:37 as along with 2 people jwortman eckart_bindewald

Nature Biotechnology, Vol. 23, No. 10. (06 October 2005), pp. 1249-1256.

by Amol Prakash, Martin Tompa

posted to comparative_genomics element regulatory by aprasad on 2005-11-01 21:21:01 as along with 2 people and 3 groups indigoviolet dchughes EisenLab G4ID Genetics-of-Gambling

Genome Res, Vol. 15, No. 7. (July 2005), pp. 901-913.

by GM Cooper, EA Stone, G Asimenos, ED Green, S Batzoglou, A Sidow

posted to comparative_genomics evolution genome_evolution sequence by aprasad on 2005-09-20 19:42:46 as along with 5 people operon nirfriedman JeffR100 Garamonfok tale

Trends Genet, Vol. 21, No. 8. (August 2005), pp. 436-440.

by K Walter, I Abnizova, G Elgar, WR Gilks

posted to cns comparative_genomics genome motif mulliken by aprasad on 2005-08-25 16:48:08 as along with 2 people and 2 groups Stew cisevol EisenLab cis-regulatory-evolution

Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005)

by GG Loots, I Ovcharenko

posted to analysis comparative_genomics dcodeorg genomic tools web by aprasad on 2005-08-18 19:47:39 as along with 1 person and 2 groups dchughes G4ID Genetics-of-Gambling

Genome Res, Vol. 12, No. 8. (August 2002), pp. 1277-1285.

by JW Thomas, AB Prasad, TJ Summers, SQ Lee-Lin, VV Maduro, JR Idol, JF Ryan, PJ Thomas, JC McDowell, ED Green

posted to bac bac_mapping comparative_genomics map overgo physical soop zooseq by aprasad on 2005-08-08 22:09:03 as

Genomics (23 June 2005)

by Matthew E E Portnoy, Kelly J J McDermott, Anthony Antonellis, Elliott H H Margulies, Arjun B B Prasad, , David M M Kingsley, Eric D D Green, Douglas P P Mortlock

posted to comparative_genomics element enhancer exactplus gdf6 joint mcs regulatory by aprasad on 2005-08-08 22:06:43 as along with 1 person and 2 groups breden FAB-lab SFUAntibodyResearch

Nature, Vol. 424, No. 6950. (14 August 2003), pp. 788-793.

by JW Thomas, JW Touchman, RW Blakesley, GG Bouffard, SM Beckstrom-Sternberg, EH Margulies, M Blanchette, AC Siepel, PJ Thomas, JC McDowell, B Maskeri, NF Hansen, MS Schwartz, RJ Weber, WJ Kent, D Karolchik, TC Bruen, R Bevan, DJ Cutler, S Schwartz, L Elnitski, JR Idol, AB Prasad, SQ Lee-Lin, VV Maduro, TJ Summers, ME Portnoy, NL Dietrich, N Akhter, K Ayele, B Benjamin, K Cariaga, CP Brinkley, SY Brooks, S Granite, X Guan, J Gupta, P Haghighi, SL Ho, MC Huang, E Karlins, PL Laric, R Legaspi, MJ Lim, QL Maduro, CA Masiello, SD Mastrian, JC McCloskey, R Pearson, S Stantripop, EE Tiongson, JT Tran, C Tsurgeon, JL Vogt, MA Walker, KD Wetherby, LS Wiggins, AC Young, LH Zhang, K Osoegawa, B Zhu, B Zhao, CL Shu, PJ De Jong, CE Lawrence, AF Smit, A Chakravarti, D Haussler, P Green, W Miller, ED Green

posted to comparative_genomics mcs nature targeted_sequencing zooseq by aprasad on 2005-08-08 22:04:51 as along with 3 people and 1 group radek adepace AaronDarling EisenLab