Group: Bioinformatics - with tag conserved [28 articles]

Neue Artikel von Mitliedern der Gruppe Bioinformatics Gruppe with tag conserved

Structural Relationships between Highly Conserved Elements and Genes in Vertebrate Genomes

PLoS ONE, Vol. 3, No. 11. (14 November 2008), e3727.

by Hong Sun, Geir Skogerbø, Zhen Wang, Wei Liu, Yixue Li

posted to structural motifs genes elements conserved by sameetmehta to the group Bioinformatics on 2008-11-15 01:52:53 as

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Accurate identification of alternatively spliced exons using support vector machine

Bioinformatics, Vol. 21, No. 7. (Apr 2005), pp. 897-901.

by G Dror, R Sorek, R Shamir

posted to 0900 20050713 algorithms alignmentmethods alternative analysis animals artificial automatedmethods chromosome comparative conserved dnamethods evolution exonsgenetics govt humans intelligence mappingmethods mice molecular non-us pattern recognition research sequence sequencegenetics software splicinggenetics study support by kaspermunch to the group Bioinformatics on 2006-11-02 10:09:02 as

Computational comparative analyses of alternative splicing regulation using full-length cDNA of various eukaryotes

RNA, Vol. 10, No. 7. (Jul 2004), pp. 1005-1018.

by H Itoh, T Washio, M Tomita

posted to 0500 20040824 acid alternative animals base complementarygenetics conserved data dna drosophila evolution exonsgenetics govt humans intronsgenetics melanogastergenetics mice molecular non-us nucleic oryza regulatory research sativagenetics sequence sequences species specificity splicinggenetics support by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:57 as

The transcriptional activity of human Chromosome 22

Genes Dev, Vol. 17, No. 4. (Feb 2003), pp. 529-540.

by JL Rinn, G Euskirchen, P Bertone, R Martone, NM Luscombe, S Hartman, PM Harrison, FK Nelson, P Miller, M Gerstein, S Weissman, M Snyder

posted to 0500 20030328 22 a acid amino analysis animals array chromosomes conserved data databases female genetic govt human humans internet introns mice molecular non-us oligonucleotide pair phs placentaphysiology poly research sequence support transcription us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:51 as

Global identification of human transcribed sequences with genome tiling arrays

Science, Vol. 306, No. 5705. (Dec 2004), pp. 2242-2246.

by P Bertone, V Stolc, TE Royce, JS Rozowsky, AE Urban, X Zhu, JL Rinn, W Tongprasit, M Samanta, S Weissman, M Gerstein, M Snyder

posted to 0900 20050120 acid analysismethods animals array base biology chain complementary computational conserved cpg databases dna exons genetic genome govt homology human humans hybridization intergenic introns islands messengergenetics mice nucleic of oligonucleotide phs polymerase probes proteinschemistrygenetics reaction reproducibility research results reverse rna sequence support transcriptase transcription us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:47 as

A comprehensive transcript index of the human genome generated using microarrays and computational approaches

Genome Biol, Vol. 5, No. 10. (2004)

by EE Schadt, SW Edwards, D Guhathakurta, D Holder, L Ying, V Svetnik, A Leonardson, KW Hart, A Russell, G Li, G Cavet, J Castle, P Mcdonagh, Z Kan, R Chen, A Kasarskis, M Margarint, RM Caceres, JM Johnson, CD Armour, Garrett PW Engele, NF Tsinoremas, DD Shoemaker

posted to 0900 20050729 20genetics 22genetics analysis and array biology chromosomes computational conserved expression gene geneticgenetics genome human humans of oligonucleotide organ pair profiling reproducibility results sensitivity sequence sequencegenetics specificity transcription by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:46 as

The transcriptional landscape of the mammalian genome

Science, Vol. 309, No. 5740. (Sep 2005), pp. 1559-1563.

by P Carninci, T Kasukawa, S Katayama, J Gough, MC Frith, N Maeda, R Oyama, T Ravasi, B Lenhard, C Wells, R Kodzius, K Shimokawa, VB Bajic, SE Brenner, S Batalov, AR Forrest, M Zavolan, MJ Davis, LG Wilming, V Aidinis, JE Allen, Ambesi A Impiombato, R Apweiler, RN Aturaliya, TL Bailey, M Bansal, L Baxter, KW Beisel, T Bersano, H Bono, AM Chalk, KP Chiu, V Choudhary, A Christoffels, DR Clutterbuck, ML Crowe, E Dalla, BP Dalrymple, B de Bono, G Della Gatta, D di Bernardo, T Down, P Engstrom, M Fagiolini, G Faulkner, CF Fletcher, T Fukushima, M Furuno, S Futaki, M Gariboldi, Georgii P Hemming, TR Gingeras, T Gojobori, RE Green, S Gustincich, M Harbers, Y Hayashi, TK Hensch, N Hirokawa, D Hill, L Huminiecki, M Iacono, K Ikeo, A Iwama, T Ishikawa, M Jakt, A Kanapin, M Katoh, Y Kawasawa, J Kelso, H Kitamura, H Kitano, G Kollias, SP Krishnan, A Kruger, SK Kummerfeld, IV Kurochkin, LF Lareau, D Lazarevic, L Lipovich, J Liu, S Liuni, S Mcwilliam, Madan M Babu, M Madera, L Marchionni, H Matsuda, S Matsuzawa, H Miki, F Mignone, S Miyake, K Morris, Mottagui S Tabar, N Mulder, N Nakano, H Nakauchi, P Ng, R Nilsson, S Nishiguchi, S Nishikawa, F Nori, O Ohara, Y Okazaki, V Orlando, KC Pang, WJ Pavan, G Pavesi, G Pesole, N Petrovsky, S Piazza, J Reed, JF Reid, BZ Ring, M Ringwald, B Rost, Y Ruan, SL Salzberg, A Sandelin, C Schneider, C Schonbach, K Sekiguchi, CA Semple, S Seno, L Sessa, Y Sheng, Y Shibata, H Shimada, K Shimada, D Silva, B Sinclair, S Sperling, E Stupka, K Sugiura, R Sultana, Y Takenaka, K Taki, K Tammoja, SL Tan, S Tang, MS Taylor, J Tegner, SA Teichmann, HR Ueda, E van Nimwegen, R Verardo, CL Wei, K Yagi, H Yamanishi, E Zabarovsky, S Zhu, A Zimmer, W Hide, C Bult, SM Grimmond, RD Teasdale, ET Liu, V Brusic, J Quackenbush, C Wahlestedt, JS Mattick, DA Hume, C Kai, D Sasaki, Y Tomaru, S Fukuda, Kanamori M Katayama, M Suzuki, J Aoki, T Arakawa, J Iida, K Imamura, M Itoh, T Kato, H Kawaji, N Kawagashira, T Kawashima, M Kojima, S Kondo, H Konno, K Nakano, N Ninomiya, T Nishio, M Okada, C Plessy, K Shibata, T Shiraki, S Suzuki, M Tagami, K Waki, A Watahiki, Okamura Y Oho, H Suzuki, J Kawai, Y Hayashizaki

posted to 0900 20050915 3 acid animals base complementarychemistry conserved dna genetic genetics genome genomics govt human humans initiation micegenetics non-us promoter proteinsgenetics regions regulatory research ribonucleic rna rnachemistryclassification sequence sequences site splicing support terminator transcription untranslated untranslatedchemistry by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:43 as

Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila

Genome Res, Vol. 14, No. 2. (Feb 2004), pp. 273-279.

by DL Halligan, Eyre A Walker, P Andolfatto, PD Keightley

posted to 0500 20040318 alignmentmethodsstatistics animals carlo comparative conserved data dna drosophila drosophilagenetics evolution frequencygenetics gene intergenicgenetics intronsgenetics melanogastergenetics method models molecular monte numerical sequence sequencegenetics statistical study by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:30 as

Identification and analysis of alternative splicing events conserved in human and mouse

Proc Natl Acad Sci U S A, Vol. 102, No. 8. (Feb 2005), pp. 2850-2855.

by GW Yeo, E Van Nostrand, D Holste, T Poggio, CB Burge

posted to 0900 20050325 alternative animals base conserved evolution exons expressed govt humans mice non-phs non-us phs research sequence splicing support tags us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:24 as

Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals

Nature, Vol. 434, No. 7031. (Mar 2005), pp. 338-345.

by X Xie, J Lu, EJ Kulbokas, TR Golub, V Mootha, Lindblad K Toh, ES Lander, M Kellis

posted to 0900 20050331 3 alignment animals base comparative conserved data dogs expression gene geneticsgenetics govt humans mammalsgenetics mice micrornasgeneticsmetabolism molecular organ phs profiling promoter rats regions regionsgenetics research sequence sequencegenetics specificity study support untranslated us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:20 as

SLAM: cross-species gene finding and alignment with a generalized pair hidden Markov model

Genome Res, Vol. 13, No. 3. (Mar 2003), pp. 496-502.

by M Alexandersson, S Cawley, L Pachter

posted to 0500 20030412 alignmentmethodsstatistics animals biologymethodsstatistics chains comparative computational conserved data design dna dnagenetics falciparumgenetics genes govt humans markov mice numerical phs plasmodium protozoangenetics research sequence sequencegenetics software species specificity structural structuralgenetics study support us vivaxgenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:19 as

Integrating genomic homology into gene structure prediction

Bioinformatics, Vol. 17 Suppl 1 (2001), pp. S140-S148.

by I Korf, P Flicek, D Duan, MR Brent

posted to 1001 20020228 acid algorithms alignmentstatistics and animals base biology comparative computational conserved data dnagenetics evolution genome govt homology human humans mice models molecular non-phs non-us nucleic numerical phs research sensitivity sequence specificity statistical study support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:11 as

Predicting full-length transcripts

Trends Biotechnol, Vol. 20, No. 7. (Jul 2002)

by MR Brent

posted to 0400 20021126 algorithms alignmentmethods analysis and animals conserved databases dnamethodstrends exonsgenetics expression gene genome govt humans information mice non-phs phs profilingmethodstrends protein research retrievalmethods sequence sequencegenetics software storage support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:10 as

Genome-wide detection of alternative splicing in expressed sequences of human genes

Nucleic Acids Res, Vol. 29, No. 13. (Jul 2001), pp. 2850-2859.

by B Modrek, A Resch, C Grasso, C Lee

Analysis of canonical and non-canonical splice sites in mammalian genomes

Nucleic Acids Res, Vol. 28, No. 21. (Nov 2000), pp. 4364-4375.

by M Burset, IA Seledtsov, VV Solovyev

posted to 1001 20010228 animals base biology computational consensus conserved databases exonsgenetics expressed genome govt humans intronsgenetics non-us of reproducibility research results rna sequence sequencegenetics sitesgenetics software splice splicinggenetics support tags by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:55 as

Comparative analyses of multi-species sequences from targeted genomic regions

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

by JW Thomas, JW Touchman, RW Blakesley, GG Bouffard, Beckstrom SM 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, Lee SQ 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

Conserved sequence elements associated with exon skipping

Nucleic Acids Res, Vol. 31, No. 7. (Apr 2003), pp. 1974-1983.

by E Miriami, H Margalit, R Sperling

posted to 0500 20030417 acid alternative animals base binding conserved databases exonsgenetics gc human nucleic rich sequence sequencegenetics sitesgenetics splicinggenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:44 as

Evolution of alternative splicing: deletions, insertions and origin of functional parts of proteins from intron sequences

Trends Genet, Vol. 19, No. 3. (Mar 2003), pp. 115-119.

by FA Kondrashov, EV Koonin

posted to 0500 20030605 acid alternative amino animals conserved data evolution genetic homology human introns isoformschemistrygenetics models molecular protein proteinschemistry sequence splicinggenetics structure tertiary by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:43 as

Analysis of the role of Caenorhabditis elegans GC-AG introns in regulated splicing

Nucleic Acids Res, Vol. 30, No. 15. (Aug 2002), pp. 3360-3367.

by T Farrer, AB Roller, WJ Kent, AM Zahler

posted to 1001 20020820 alternative animals base caenorhabditis conserved elegansgenetics genes genetic govt helminth helminthchemistrymetabolism intronsphysiology models phs rna sequence splicing support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:37 as

Ultraconserved elements in the human genome

Science, Vol. 304, No. 5675. (May 2004), pp. 1321-1325.

by G Bejerano, M Pheasant, I Makunin, S Stephen, WJ Kent, JS Mattick, D Haussler

posted to 0500 20040616 acid alternative animals base biology chickensgenetics computational conformation conserved data dna dogsgenetics evolution exons expression gene genes genome govt human intergenic introns micegenetics molecular mutation non-us nucleic phs ratsgenetics regulation rnachemistrygeneticsmetabolism sequence splicing structural support takifugugenetics us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:35 as

Initial sequencing and analysis of the human genome

Nature, Vol. 409, No. 6822. (Feb 2001), pp. 860-921.

by ES Lander, LM Linton, B Birren, C Nusbaum, MC Zody, J Baldwin, K Devon, K Dewar, M Doyle, W Fitzhugh, R Funke, D Gage, K Harris, A Heaford, J Howland, L Kann, J Lehoczky, R Levine, P Mcewan, K Mckernan, J Meldrim, JP Mesirov, C Miranda, W Morris, J Naylor, C Raymond, M Rosetti, R Santos, A Sheridan, C Sougnez, Stange N Thomann, N Stojanovic, A Subramanian, D Wyman, J Rogers, J Sulston, R Ainscough, S Beck, D Bentley, J Burton, C Clee, N Carter, A Coulson, R Deadman, P Deloukas, A Dunham, I Dunham, R Durbin, L French, D Grafham, S Gregory, T Hubbard, S Humphray, A Hunt, M Jones, C Lloyd, A Mcmurray, L Matthews, S Mercer, S Milne, JC Mullikin, A Mungall, R Plumb, M Ross, R Shownkeen, S Sims, RH Waterston, RK Wilson, LW Hillier, JD Mcpherson, MA Marra, ER Mardis, LA Fulton, AT Chinwalla, KH Pepin, WR Gish, SL Chissoe, MC Wendl, KD Delehaunty, TL Miner, A Delehaunty, JB Kramer, LL Cook, RS Fulton, DL Johnson, PJ Minx, SW Clifton, T Hawkins, E Branscomb, P Predki, P Richardson, S Wenning, T Slezak, N Doggett, JF Cheng, A Olsen, S Lucas, C Elkin, E Uberbacher, M Frazier, RA Gibbs, DM Muzny, SE Scherer, JB Bouck, EJ Sodergren, KC Worley, CM Rives, JH Gorrell, ML Metzker, SL Naylor, RS Kucherlapati, DL Nelson, GM Weinstock, Y Sakaki, A Fujiyama, M Hattori, T Yada, A Toyoda, T Itoh, C Kawagoe, H Watanabe, Y Totoki, T Taylor, J Weissenbach, R Heilig, W Saurin, F Artiguenave, P Brottier, T Bruls, E Pelletier, C Robert, P Wincker, DR Smith, Doucette L Stamm, M Rubenfield, K Weinstock, HM Lee, J Dubois, A Rosenthal, M Platzer, G Nyakatura, S Taudien, A Rump, H Yang, J Yu, J Wang, G Huang, J Gu, L Hood, L Rowen, A Madan, S Qin, RW Davis, NA Federspiel, AP Abola, MJ Proctor, RM Myers, J Schmutz, M Dickson, J Grimwood, DR Cox, MV Olson, R Kaul, C Raymond, N Shimizu, K Kawasaki, S Minoshima, GA Evans, M Athanasiou, R Schultz, BA Roe, F Chen, H Pan, J Ramser, H Lehrach, R Reinhardt, WR Mccombie, de La, N Dedhia, H Blocker, K Hornischer, G Nordsiek, R Agarwala, L Aravind, JA Bailey, A Bateman, S Batzoglou, E Birney, P Bork, DG Brown, CB Burge, L Cerutti, HC Chen, D Church, M Clamp, RR Copley, T Doerks, SR Eddy, EE Eichler, TS Furey, J Galagan, JG Gilbert, C Harmon, Y Hayashizaki, D Haussler, H Hermjakob, K Hokamp, W Jang, LS Johnson, TA Jones, S Kasif, A Kaspryzk, S Kennedy, WJ Kent, P Kitts, EV Koonin, I Korf, D Kulp, D Lancet, TM Lowe, A Mclysaght, T Mikkelsen, JV Moran, N Mulder, VJ Pollara, CP Ponting, G Schuler, J Schultz, G Slater, AF Smit, E Stupka, J Szustakowski, Thierry D Mieg, Thierry J Mieg, L Wagner, J Wallis, R Wheeler, A Williams, YI Wolf, KH Wolfe, SP Yang, RF Yeh, F Collins, MS Guyer, J Peterson, A Felsenfeld, KA Wetterstrand, A Patrinos, MJ Morgan, J Szustakowki, P de Jong, JJ Catanese, K Osoegawa, H Shizuya, S Choi, YJ Chen

posted to 1001 20010327 acid analysis animals chromosome conserved cpg databases diseases dna dnamethods drug duplication elements evolution factual forecasting gc gene genes genetic genetics genome govt human inborn industry islands mapping medical molecular mutation non-phs non-us nucleic phs private project proteinsgenetics proteome public repetitive rich rnagenetics sector sequence sequences species specificity support transposable us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:23 as

The granule-bound starch synthase (GBSSI) gene in the Rosaceae: multiple loci and phylogenetic utility.

Mol Phylogenet Evol, Vol. 17, No. 3. (Dec 2000), pp. 388-400.

by RC Evans, LA Alice, CS Campbell, EA Kellogg, TA Dickinson

posted to 11133193 alignment analysis angiosperms animals arabidopsis base bayes behavior biology blotting cerevisiae chain chromosome classification cloning comparative composition computational conserved crosses cytoplasmic data developmental dna dna-binding dosage duplicate duplication evolution expression feeding flowers functions fungal gene genes genetic genetics genome genotype govt granules leaves likelihood loci mapping models molecular mutagenesis mutation non-phs non-us of phenotype phylogeny physiology plant plants poaceae polymerase polymorphism polyploidy primers proteins pseudogenes quantitative reaction regulation research ribosomal roots rubiaceae saccharomyces sequence setaria shoots southern spacer species specificity starch study support synteny synthase theorem trait us variance variation bibtex-import by kehan to the group Bioinformatics on 2006-07-13 16:23:34 as

along with 2 groups biodiversity_conservation GrassBase

Genetic control of branching in foxtail millet.

Proc. Natl. Acad. Sci. U. S. A., Vol. 101, No. 24. (Jun 2004), pp. 9045-50.

by Andrew N Doust, Katrien M Devos, Michael D Gadberry, Mike D Gale, Elizabeth A Kellogg

Phylogenetic relationships and evolution of the KNOTTED class of plant homeodomain proteins.

Mol. Biol. Evol., Vol. 16, No. 4. (Apr 1999), pp. 553-63.

by G Bharathan, BJ Janssen, EA Kellogg, N Sinha