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blobbybirdman's genomics [30 articles]

Recent papers added to blobbybirdman's library classified by the tag genomics. You can also see everyone's genomics.
  • A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes.
    PLoS Comput Biol, Vol. 1, No. 6. (November 2005)
    by DH Haft, J Selengut, EF Mongodin, KE Nelson
    posted to prokaryotes genomics crispr by blobbybirdman on 2008-04-29 16:45:13 as **** along with 1 person and 1 group saru Myxo group
  • Predicting prokaryotic ecological niches using genome sequence analysis.
    PLoS ONE, Vol. 2, No. 1. (2007)
    by G Suen, BS Goldman, RD Welch
    posted to ecological-niches genomics prokaryotes sequence-analysis by blobbybirdman on 2008-01-24 16:30:32 as **** along with 3 people and 2 groups jdelcampo Thaverkamp kroos Microbial-Ecology Myxo group
  • Evidence for the Adaptive Evolution of Mutation Rates
    Cell, Vol. 101, No. 6. (9 June 2000), pp. 581-584.
    by David Metzgar, Christopher Wills
    posted to evolution genomics mutation-rates by blobbybirdman on 2007-10-29 16:49:01 as ***** along with 1 person and 1 group rebeccamancy ColDyn
  • Mutation rates in mammalian genomes
    Proceedings of the National Academy of Sciences, Vol. 99, No. 2. (22 January 2002), pp. 803-808.
    by Sudhir Kumar, Sankar Subramanian
    posted to evolution genomics mutation-rates by blobbybirdman on 2007-10-29 16:47:11 as read along with 2 people lesander bandrewfox
  • Mapping the C. elegans noncoding transcriptome with a whole-genome tiling microarray
    Genome Res. (4 September 2007), gr.6611807.
    by Housheng He, Jie Wang, Tao Liu, Shirley X Liu, Tiantian Li, Yunfei Wang, Zuwei Qian, Haixia Zheng, Xiaopeng Zhu, Tao Wu, Baochen Shi, Wei Deng, Wei Zhou, Geir Skogerbo, Runsheng Chen
    posted to c_elegans genomics microarray mirna by blobbybirdman on 2007-10-16 19:45:10 as **** along with 2 people cabbagezs xingxu
  • A Computational Pipeline for High- Throughput Discovery of cis-Regulatory Noncoding RNA in Prokaryotes
    PLoS Computational Biology, Vol. 3, No. 7. (1 July 2007), e126.
    by Zizhen Yao, Jeffrey Barrick, Zasha Weinberg, Shane Neph, Ronald Breaker, Martin Tompa, Walter L Ruzzo
    posted to algorithms bioinformatics genomics mirna prokaryotes by blobbybirdman on 2007-10-16 19:42:47 as **** along with 4 people sebastien_vigneau zwang lp2 cabbagezs
  • Comparative genomics at the vertebrate extremes.
    Nat Rev Genet, Vol. 5, No. 6. (June 2004), pp. 456-465.
    by D Boffelli, MA Nobrega, EM Rubin
    posted to evolutionary-comparisons genomics vertebrates by blobbybirdman on 2007-10-16 17:26:51 as **** along with 2 people olympos emptyhb
  • Ultraconserved elements in the human genome.
    Science, Vol. 304, No. 5675. (28 May 2004), pp. 1321-1325.
    by G Bejerano, M Pheasant, I Makunin, S Stephen, WJ Kent, JS Mattick, D Haussler
    posted to evolutionary-comparisons genomics multiple-alignment by blobbybirdman on 2007-10-16 17:10:30 as ***** along with 13 people and 5 groups pradiptaray karbak barry ujh alexisgallagher bpb aprasad balicea dchughes djkt sujaikumar cisevol fpattyn structural_bioinformatics Bioinformatics G4ID Genetics-of-Gambling cis-regulatory-evolution
  • Gene duplication and the adaptive evolution of a classic genetic switch
    Nature, Vol. 449, No. 7163. (11 October 2007), pp. 677-681.
    by Chris T Hittinger, Sean B Carroll
    posted to evolution genomics by blobbybirdman on 2007-10-16 15:08:51 as **** along with 8 people and 2 groups clearbluespring skumagai mcphee dpollard dchughes djkt biomcgary kjlipin EisenLab cis-regulatory-evolution
  • The regulatory content of intergenic DNA shapes genome architecture.
    Genome Biol, Vol. 5, No. 4. (2004)
    by CE Nelson, BM Hersh, SB Carroll
    posted to cis-regulatory-elements evolution genomics non-coding-dna by blobbybirdman on 2007-10-16 15:05:49 as *** along with 4 people and 3 groups dpollard madhadron elzodw cisevol EisenLab cis-regulatory-evolution BergmanLab
  • Mapping of transcription factor binding regions in mammalian cells by ChIP: Comparison of array- and sequencing-based technologies
    Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 898-909.
    by Ghia M Euskirchen, Joel S Rozowsky, Chia-Lin Wei, Wah H Lee, Zhengdong D Zhang, Stephen Hartman, Olof Emanuelsson, Viktor Stolc, Sherman Weissman, Mark B Gerstein, Yijun Ruan, Michael Snyder
    posted to binding-site-predictions chip-chip chip-seq genomics microarray by blobbybirdman on 2007-10-11 14:47:14 as **** along with 6 people and 4 groups isimpson kengg jtaylor ghattem epigenetics idonaldson Bioinformatics Plantandetc UH - Computational Biology BergmanLab
  • Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project.
    Nature, Vol. 447, No. 7146. (14 June 2007), pp. 799-816.
    by
    posted to encode functional-annotation genomics by blobbybirdman on 2007-10-11 14:45:07 as *** along with 9 people and 2 groups jyuh jfr chad_davis kengg olympos shikin fpattyn yevishere elfar Bioinformatics UH - Computational Biology
  • ENCODE and our very busy genome
    Nature Genetics, Vol. 39, No. 7., pp. 817-818.
    by Steven Henikoff
    posted to encode genomics by blobbybirdman on 2007-10-11 14:44:12 as *** along with 2 people and 3 groups grahamc yezq Bioinformatics ParkinsonLab_at_MaRS UH - Computational Biology
  • ENCODE: More genomic empowerment.
    Genome Res, Vol. 17, No. 6. (June 2007), pp. 667-668.
    by GM Weinstock
    posted to encode genomics by blobbybirdman on 2007-10-11 14:43:21 as *** along with 4 people and 4 groups dchughes ghattem wenhan maximilianh Bioinformatics G4ID Genetics-of-Gambling UH - Computational Biology
  • Statistical analysis of the genomic distribution and correlation of regulatory elements in the ENCODE regions
    Genome Res., Vol. 17, No. 6. (1 June 2007), pp. 787-797.
    by Zhengdong D Zhang, Alberto Paccanaro, Yutao Fu, Sherman Weissman, Zhiping Weng, Joseph Chang, Michael Snyder, Mark B Gerstein
    posted to chip-chip cis-regulatory-elements encode genomics h_sapiens by blobbybirdman on 2007-10-11 14:40:46 as **** along with 6 people and 4 groups ana Borelli kengg ghattem epigenetics inesdesantiago structural_bioinformatics Bioinformatics Plantandetc UH - Computational Biology
  • The ENCODE Project at UC Santa Cruz.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by DJ Thomas, KR Rosenbloom, H Clawson, AS Hinrichs, H Trumbower, BJ Raney, D Karolchik, GP Barber, RA Harte, J Hillman-Jackson, RM Kuhn, BL Rhead, KE Smith, A Thakkapallayil, AS Zweig, , D Haussler, WJ Kent
    posted to encode functional-annotation genomics h_sapiens by blobbybirdman on 2007-10-11 14:35:56 as **** along with 2 groups Bioinformatics UH - Computational Biology
  • Genome-Wide Mapping of in Vivo Protein-DNA Interactions
    Science (31 May 2007), 1141319.
    by David S Johnson, Ali Mortazavi, Richard M Myers, Barbara Wold
    posted to chip-seq cis-regulatory-elements genomics by blobbybirdman on 2007-10-11 13:58:59 as read along with 17 people and 5 groups aalibes balicea andersbj JeremyZucker aswin kengg giovanni cjeans ghattem zwang epigenetics biomcgary george_g cabbagezs Jporci caseybrown emptyhb Bioinformatics microRNA Marcotte_Lab UH - Computational Biology Myxo group
  • Genomics: The personal side of genomics
    Nature, Vol. 449, No. 7162. (4 October 2007), pp. 627-630.
    by Nathan Blow
    posted to future genomics by blobbybirdman on 2007-10-09 18:24:50 as **** along with 6 people tharris dchughes rdiaz wenhan PredictER rschulz
  • Gene dosage balance: deletions, duplications and dominance
    Trends Genet, Vol. 21, No. 1. (2005), pp. 33-5.
    by RA Veitia
    posted to evolution genomics by blobbybirdman on 2007-10-09 17:56:39 as ***
  • Genomewide analysis of Drosophila GAGA factor target genes reveals context-dependent DNA binding
    Proc Natl Acad Sci U S A, Vol. 100, No. 5. (2003), pp. 2580-5.
    by B van Steensel, J Delrow, HJ Bussemaker
    posted to binding-site-prediction dna-binding drosophila genomics by blobbybirdman on 2007-10-09 17:56:36 as ***
  • Information content of binding sites on nucleotide sequences
    J Mol Biol, Vol. 188, No. 3. (1986), pp. 415-31.
    by TD Schneider, GD Stormo, L Gold, A Ehrenfeucht
    posted to computational-biology dna-binding genomics information-theory by blobbybirdman on 2007-10-09 17:56:35 as read
  • Reading of DNA sequence logos: prediction of major groove binding by information theory
    Methods Enzymol, Vol. 274 (1996), pp. 445-55.
    by TD Schneider
    posted to binding-site-prediction computational-biology dna-binding genomics information-theory by blobbybirdman on 2007-10-09 17:56:35 as read
  • Information content of individual genetic sequences
    J Theor Biol, Vol. 189, No. 4. (1997), pp. 427-41.
    by TD Schneider
    posted to binding-site-prediction computational-biology dna-binding genomics information-theory by blobbybirdman on 2007-10-09 17:56:35 as ****
  • Evolution of biological information
    Nucleic Acids Res, Vol. 28, No. 14. (2000), pp. 2794-9.
    by TD Schneider
    posted to evolution genomics information-theory sequence-analysis by blobbybirdman on 2007-10-09 17:56:35 as ****
  • Deciphering genetic regulatory codes: a challenge for functional genomics
    Proc Natl Acad Sci U S A, Vol. 99, No. 2. (2002), pp. 546-8.
    by AM Michelson
    posted to algorithms animals binding developmental drosophila elements enhancer expression factorsmetabolism gene genes genetic genetics genomics govt insect melanogasterembryologygenetics models non-us regulation regulator research sitesgenetics support transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:29 as **
  • Sequencing and comparison of yeast species to identify genes and regulatory elements
    Nature, Vol. 423, No. 6937. (2003), pp. 241-54.
    by M Kellis, N Patterson, M Endrizzi, B Birren, ES Lander
    posted to acidgenetics alignment analysis base binding cerevisiae cerevisiaegenetics comparative conserved data dna elementsgenetics evolution expression factorsmetabolism framesgenetics fungal fungalgenetics gene genes genome genomics humans intronsgenetics molecular nucleic open proteinschemistrygenetics proteinsmetabolism reading regulation regulatory response saccharomyces saccharomycesgenetics sequence sequencegenetics sequences sites species specificity study transcription bibtex-import by blobbybirdman on 2007-10-09 17:56:24 as **
  • Conservation of DNA curvature signals in regulatory regions of prokaryotic genes
    Nucleic Acids Res, Vol. 31, No. 23. (2003), pp. 6770-7.
    by R Jauregui, Abreu C Goodger, Moreno G Hagelsieb, Collado J Vides, E Merino
    posted to acid acidgenetics archaeal archaealchemistrymetabolism archaealgenetics bacterial bacterialchemistrymetabolism bacterialgenetics cell cellsmetabolism conformation conserved divisiongenetics dna expression factor flagellagenetics for gene genes geneticsgenetics genome genomics glutamate-ammonia govt gyrasegenetics inversion ligasegenetics non-us nucleic prokaryotic promoter proteingenetics regions regulation regulatory research sequencegenetics sequences stimulation support transposasesgenetics bibtex-import by blobbybirdman on 2007-10-09 17:56:22 as **
  • Integrating regulatory motif discovery and genome-wide expression analysis
    Proc Natl Acad Sci U S A, Vol. 100, No. 6. (2003), pp. 3339-44.
    by EM Conlon, XS Liu, JD Lieb, JS Liu
    posted to algorithms analysisstatistics array base cell cerevisiaecytologygenetics cyclegenetics data dna expression fungal fungalgenetics gene genes genomics govt linear models non-phs non-us numerical oligonucleotide phs profilingstatistics regulator saccharomyces sequence support us bibtex-import by blobbybirdman on 2007-10-09 17:56:16 as **
  • MAVID: constrained ancestral alignment of multiple sequences
    Genome Res, Vol. 14, No. 4. (2004), pp. 693-9.
    by N Bray, L Pachter
    posted to algorithms evolutionary-comparisions genomics multiple-alignment by blobbybirdman on 2007-10-09 17:56:13 as **
  • Evolution of sensory complexity recorded in a myxobacterial genome
    PNAS, Vol. 103, No. 41. (10 October 2006), pp. 15200-15205.
    by BS Goldman, WC Nierman, D Kaiser, SC Slater, AS Durkin, JA Eisen, CM Ronning, WB Barbazuk, M Blanchard, C Field, C Halling, G Hinkle, O Iartchuk, HS Kim, C Mackenzie, R Madupu, N Miller, A Shvartsbeyn, SA Sullivan, M Vaudin, R Wiegand, HB Kaplan
    posted to evolution genomics m_xanthus myxobacteria by blobbybirdman on 2007-10-09 17:25:43 as read along with 3 people bjorns treangen stajich
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