stajichs comparative_genomics [22 articles]

Neue Publikationen in stajichs Bibliothek eingetragen unter dem Bezeichner: comparative_genomics. You can also see everyone's comparative_genomics.

Genome sequence surveys of Brachiola algerae and Edhazardia aedis reveal microsporidia with low gene densities

BMC Genomics, Vol. 9 (29 April 2008), 200.

by Bryony AP Williams, Renny CH Lee, James J Becnel, Louis M Weiss, Naomi M Fast, Patrick J Keeling

posted to microsporidia genome comparative_genomics by stajich on 2008-07-07 03:36:49 as

along with 1 group Berkeley Mycology

What can comparative genomics tell us about species concepts in the genus Aspergillus?

Studies in mycology, Vol. 59 (2007), pp. 11-17.

by A Rokas, G Payne, ND Fedorova, SE Baker, M Machida, J Yu, DR Georgianna, RA Dean, D Bhatnagar, TE Cleveland, JR Wortman, R Maiti, V Joardar, P Amedeo, DW Denning, WC Nierman

posted to fungi comparative_genomics aspergillus by stajich on 2008-05-25 20:56:19 as

along with 1 group Berkeley Mycology

Comparative hybridization reveals extensive genome variation in the AIDS-associated pathogen Cryptococcus neoformans

Genome Biology, Vol. 9 (22 February 2008), R41.

by Guanggan Hu, Iris Liu, Anita Sham, Jason E Stajich, Fred S Dietrich, James W Kronstad

posted to fungi cryptococcus comparative_genomics cgh by stajich on 2008-05-19 06:48:44 as read

along with 1 group Berkeley Mycology

The genome of the brown alga Ectocarpus siliculosus contains a series of viral DNA pieces, suggesting an ancient association with large dsDNA viruses

BMC Evolutionary Biology, Vol. 8 (12 April 2008), 110.

by Nicolas Delaroque, Wilhelm Boland

posted to algae comparative comparative_genomics genome virus by stajich on 2008-04-15 06:20:29 as

along with 1 group Berkeley Mycology

Levers and fulcrums: progress in cis-regulatory motif models

Nature Methods, Vol. 5, No. 4., pp. 297-298.

by Ewan Birney

posted to cis-regulatory comparative_genomics methods motif prediction by stajich on 2008-04-07 16:11:40 as

along with 3 people and 2 groups isimpson pradiptaray emptyhb EisenLab Berkeley Mycology

Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

Nature, Vol. 450, No. 7167., pp. 219-232.

by Alexander Stark, Michael F Lin, Pouya Kheradpour, Jakob S Pedersen, Leopold Parts, Joseph W Carlson, Madeline A Crosby, Matthew D Rasmussen, Sushmita Roy, Ameya N Deoras, Graham J Ruby, Julius Brennecke, Harvard F Curators, Berkeley, Emily Hodges, Angie S Hinrichs, Anat Caspi, Benedict Paten, Seung-Won Park, Mira V Han, Morgan L Maeder, Benjamin J Polansky, Bryanne E Robson, Stein Aerts, Jacques van Helden, Bassem Hassan, Donald G Gilbert, Deborah A Eastman, Michael Rice, Michael Weir, Matthew W Hahn, Yongkyu Park, Colin N Dewey, Lior Pachter, James W Kent, David Haussler, Eric C Lai, David P Bartel, Gregory J Hannon, Thomas C Kaufman, Michael B Eisen, Andrew G Clark, Douglas Smith, Susan E Celniker, William M Gelbart, Manolis Kellis

posted to comparative_genomics drosophila genome genome_paper sequencing by stajich on 2008-04-05 19:56:58 as

along with 13 people and 2 groups shuzhens PetrovLab operon tmmurali djkt timflutre lp2 cabbagezs nklee hpaces roys caseybrown gjuggler csb_journal_club_public Berkeley Mycology

A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands

Genes Dev., Vol. 22, No. 1. (1 January 2008), pp. 8-13.

by Alexander Stark, Natascha Bushati, Calvin H Jan, Pouya Kheradpour, Emily Hodges, Julius Brennecke, David P Bartel, Stephen M Cohen, Manolis Kellis

posted to comparative_genomics drosophila mirna noncoding_rna by stajich on 2008-04-05 19:55:44 as

along with 4 people and 1 group sebastien_vigneau heliopais Alexander_Kanitz maralena Berkeley Mycology

Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes

Genome Res. (7 November 2007), gr.6593807.

by Alexander Stark, Pouya Kheradpour, Leopold Parts, Julius Brennecke, Emily Hodges, Gregory J Hannon, Manolis Kellis

posted to comparative_genomics drosophila fly mirna prediction by stajich on 2008-03-11 00:31:16 as

along with 4 people and 2 groups lp2 cabbagezs heliopais maralena microRNA Berkeley Mycology

Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

Genome Biology, Vol. 9 (11 January 2008), R7.

by Brian J Haas, Steven L Salzberg, Wei Zhu, Mihaela Pertea, Jonathan E Allen, Joshua Orvis, Owen R White, Robin C Buell, Jennifer R Wortman

posted to combiners comparative_genomics gene_prediction genome_annotation by stajich on 2008-01-21 02:09:44 as

along with 2 people and 1 group GustavoLacerda mclarenv Berkeley Mycology

CONTRAST: a discriminative, phylogeny-free approach to multiple informant de novo gene prediction

Genome Biology, Vol. 8 (20 December 2007), R269.

by Samuel S Gross, Chuong B Do, Marina Sirota, Serafim Batzoglou

posted to comparative_genomics gene_prediction by stajich on 2007-12-23 21:48:05 as

along with 2 people and 2 groups GustavoLacerda renatomilani EisenLab Berkeley Mycology

The fungus Ustilago maydis and humans share disease-related proteins that are not found in Saccharomyces cerevisiae

BMC Genomics, Vol. 8 (20 December 2007), 473.

by Martin Muensterkoetter, Gero Steinberg

posted to comparative_genomics ustilago by stajich on 2007-12-23 21:45:59 as

along with 2 people and 1 group seitentaisei GustavoLacerda Berkeley Mycology

Evolution of genes and genomes on the Drosophila phylogeny

Nature, Vol. 450, No. 7167. (November 2007), pp. 203-218.

Comparative genome and proteome analysis of Anopheles gambiae and Drosophila melanogaster.

Science, Vol. 298, No. 5591. (4 October 2002), pp. 149-159.

by EM Zdobnov, C von Mering, I Letunic, D Torrents, M Suyama, RR Copley, GK Christophides, D Thomasova, RA Holt, GM Subramanian, HM Mueller, G Dimopoulos, JH Law, MA Wells, E Birney, R Charlab, AL Halpern, E Kokoza, CL Kraft, Z Lai, S Lewis, C Louis, C Barillas-Mury, D Nusskern, GM Rubin, SL Salzberg, GG Sutton, P Topalis, R Wides, P Wincker, M Yandell, FH Collins, J Ribeiro, WM Gelbart, FC Kafatos, P Bork

posted to anopheles comparative_genomics by stajich on 2007-12-16 01:03:21 as

along with 1 person and 1 group sdinka Berkeley Mycology

Initial sequencing and comparative analysis of the mouse genome.

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_paper mouse by stajich on 2007-12-16 01:02:37 as

along with 17 people and 2 groups OriginalLurch dkulp sdinka Cortel jwortman Dax42 aprasad ccots indigoviolet adepace treangen joshuashen djkt olympos hausen yoanjacquemin elfar EisenLab Berkeley Mycology

Genome sequence of the Brown Norway rat yields insights into mammalian evolution.

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_paper rat by stajich on 2007-12-16 01:02:12 as

along with 5 people and 4 groups aprasad ccots rvosa dchughes djkt FAB-lab G4ID Genetics-of-Gambling Berkeley Mycology

The Genome Sequence of Caenorhabditis briggsae: A Platform for Comparative Genomics

PLoS Biology, Vol. 1, No. 2. (1 November 2003), e45.

by Lincoln D Stein, Zhirong Bao, Darin Blasiar, Thomas Blumenthal, Michael R Brent, Nansheng Chen, Asif Chinwalla, Laura Clarke, Chris Clee, Avril Coghlan, Alan Coulson, Peter D'eustachio, David H Fitch, Lucinda A Fulton, Robert E Fulton, Sam Griffiths-Jones, Todd W Harris, Ladeana W Hillier, Ravi Kamath, Patricia E Kuwabara, Elaine R Mardis, Marco A Marra, Tracie L Miner, Patrick Minx, James C Mullikin, Robert W Plumb, Jane Rogers, Jacqueline E Schein, Marc Sohrmann, John Spieth, Jason E Stajich, Chaochun Wei, David Willey, Richard K Wilson, Richard Durbin, Robert H Waterston

posted to briggsae caenorhabditis comparative_genomics genome_paper nematode by stajich on 2007-12-16 01:00:16 as

along with 1 person and 1 group sujaikumar Berkeley Mycology

Distinguishing protein-coding and noncoding genes in the human genome

Proceedings of the National Academy of Sciences (26 November 2007), 0709013104.

by Michele Clamp, Ben Fry, Mike Kamal, Xiaohui Xie, James Cuff, Michael F Lin, Manolis Kellis, Kerstin Lindblad-Toh, Eric S Lander

Targeted discovery of novel human exons by comparative genomics

Genome Res. (7 November 2007), gr.7128207.

by Adam Siepel, Mark Diekhans, Brona Brejova, Laura Langton, Michael Stevens, Charles L Comstock, Colleen Davis, Brent Ewing, Shelly Oommen, Christopher Lau, Hung-Chun Yu, Jianfeng Li, Bruce A Roe, Phil Green, Daniela S Gerhard, Gary Temple, David Haussler, Michael R Brent

posted to comparative_genomics gene_finding gene_prediction by stajich on 2007-11-19 21:02:23 as

along with 2 people dchughes wenhan

Comparative genomics of fungal allergens and epitopes shows widespread distribution of closely related allergen and epitope orthologues

BMC Genomics, Vol. 7 (09 October 2006), 251.

by Paul Bowyer, Marcin Fraczek, David W Denning

posted to allergen comparative_genomics fungal genome by stajich on 2007-09-04 22:04:45 as

Identification and characterization of insect-specific proteins by genome data analysis

BMC Genomics, Vol. 8 (04 April 2007), 93.

by Guojie Zhang, Hongsheng Wang, Junjie Shi, Xiaoling Wang, Hongkun Zheng, Gane K Wong, Terry Clark, Wen Wang, Jun Wang, Le Kang

posted to bioinformatics comparative_genomics evolution by stajich on 2007-04-19 22:05:57 as

along with 1 person and 1 group dpollard EisenLab

Evolution of sensory complexity recorded in a myxobacterial genome