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Group: Bioinformatics - with tag software [51 articles]

Neue Artikel von Mitliedern der Gruppe Bioinformatics Gruppe with tag software
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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 **
  • Gene structure prediction and alternative splicing analysis using genomically aligned ESTs
    Genome Res, Vol. 11, No. 5. (May 2001), pp. 889-900.
    by Z Kan, EC Rouchka, WR Gish, DJ States
    posted to 1001 20010629 alignmentinstrumentationmethods alternative biologyinstrumentationmethods comparative computational expressed genes genetic genome govt human humans messengermetabolism non-phs phs research rna sequence software splicinggenetics structuralgenetics study support tags transcription us validation by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:53 as **
  • Alternative splicing of conserved exons is frequently species-specific in human and mouse
    Trends Genet, Vol. 21, No. 2. (Feb 2005), pp. 73-77.
    by Q Pan, MA Bakowski, Q Morris, W Zhang, BJ Frey, TR Hughes, BJ Blencowe
    posted to 0900 20050409 alternative animals exons expressed genetic genome govt humans mice models non-us protein research sequence software species specificity splicing structure support tags tertiary by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:53 as **
  • Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experiments
    Trends Genet, Vol. 21, No. 2. (Feb 2005), pp. 93-102.
    by JM Johnson, S Edwards, D Shoemaker, EE Schadt
    posted to 0900 20050409 22 analysismethods animals antisensechemistry array biology chromosomes complementarymetabolism computational dna exons genetic genome human humans introns isoforms messengerchemistrymetabolism models oligonucleotide oligonucleotides pair protein rna sequence software statistics transcription by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:50 as **
  • EST comparison indicates 38\% of human mRNAs contain possible alternative splice forms
    FEBS Lett, Vol. 474, No. 1. (May 2000), pp. 83-86.
    by D Brett, J Hanke, G Lehmann, S Haase, S Delbruck, S Krueger, J Reich, P Bork
    posted to 1915 20000718 alternative comparative databases deletion exons factual gene humans messengerchemistry proteinsgenetics rna software splicing study by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:44 as **
  • The human genome browser at UCSC
    Genome Res, Vol. 12, No. 6. (Jun 2002), pp. 996-1006.
    by WJ Kent, CW Sugnet, TS Furey, KM Roskin, TH Pringle, AM Zahler, D Haussler
    posted to 1001 20020702 acid california database databases expression gene genes genetic genome govt homology human humans management messenger non-phs non-us nucleic phs research rna sequence software structural support systems universitiestrends us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:38 as **
  • Ensembl 2005
    Nucleic Acids Res, Vol. 33, No. Database issue. (Jan 2005), pp. D447-D453.
    by T Hubbard, D Andrews, M Caccamo, G Cameron, Y Chen, M Clamp, L Clarke, G Coates, T Cox, F Cunningham, V Curwen, T Cutts, T Down, R Durbin, Fernandez XM Suarez, J Gilbert, M Hammond, J Herrero, H Hotz, K Howe, V Iyer, K Jekosch, A Kahari, A Kasprzyk, D Keefe, S Keenan, F Kokocinsci, D London, I Longden, G Mcvicker, C Melsopp, P Meidl, S Potter, G Proctor, M Rae, D Rios, M Schuster, S Searle, J Severin, G Slater, D Smedley, J Smith, W Spooner, A Stabenau, J Stalker, R Storey, S Trevanion, Ureta A Vidal, J Vogel, S White, C Woodwark, E Birney
    posted to 0900 20050416 acid alignment animals base cattle databases dogs genomics govt humans interface internet mice non-us nucleic phs rats research sequence software support us user-computer by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:37 as **
  • Identification of protein coding regions in genomic DNA
    J Mol Biol, Vol. 248, No. 1. (Apr 1995), pp. 1-18.
    by EE Snyder, GD Stormo
    posted to 0001 19950421 base biosynthesis comparative composition computer dnachemistrymetabolism exons genes govt humans introns models non-phs of phs protein proteinsgenetics reproducibility research results sequence simulation software statistical study support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:36 as **
  • EST\_GENOME: a program to align spliced DNA sequences to unspliced genomic DNA
    Comput Appl Biosci, Vol. 13, No. 4. (Aug 1997), pp. 477-478.
    by R Mott
    posted to 0001 16genetics 19970801 acid algorithms alignmentmethodsstatistics base chromosomes complementarygenetics data dna evaluation expression gene genome govt homology human humans molecular non-us nucleic numerical pair recombinant research sequence software studies support by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:34 as **
  • Finding genes in DNA with a Hidden Markov Model
    J Comput Biol, Vol. 4, No. 2. (Sum 1997), pp. 127-141.
    by J Henderson, S Salzberg, KH Fasman
    posted to 0001 19970701 algorithms and animals chains comparative databases dnagenetics exons factual genes genetic govt markov models non-phs of phs reproducibility research results sensitivity software specificity study support us vertebratesgenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:27 as **
  • GlimmerM, Exonomy and Unveil: three ab initio eukaryotic genefinders
    Nucleic Acids Res, Vol. 31, No. 13. (Jul 2003), pp. 3601-3604.
    by WH Majoros, M Pertea, C Antonescu, SL Salzberg
    posted to 0500 20030819 analysis arabidopsisgenetics cells chains dnamethods eukaryotic exons genes govt internet introns markov non-phs phs plant research sequence software support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:21 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 **
  • Comparative gene prediction in human and mouse
    Genome Res, Vol. 13, No. 1. (Jan 2003), pp. 108-117.
    by G Parra, P Agarwal, JF Abril, T Wiehe, JW Fickett, R Guigo
    posted to 0400 20030318 22genetics acid animals biologymethods chromosomes comparative computational databases forecastingmethods genes genetic genome govt human humans mice non-us nucleic of pair predictive reproducibility research results software structuralgenetics study support tests value by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:18 as **
  • Combining diverse evidence for gene recognition in completely sequenced bacterial genomes
    Nucleic Acids Res, Vol. 26, No. 12. (Jun 1998), pp. 2941-2947.
    by D Frishman, A Mironov, HW Mewes, M Gelfand
    posted to 0001 19980605 algorithms alignmentmethods analysis bacillus bacterial codon coligenetics databases dna escherichia factual frames genome govt initiator non-us open proteinsgenetics reading research sequence software subtilisgenetics support by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:18 as **
  • Microbial gene identification using interpolated Markov models
    Nucleic Acids Res, Vol. 26, No. 2. (Jan 1998), pp. 544-548.
    by SL Salzberg, AL Delcher, S Kasif, O White
    posted to 0001 19980228 algorithms alignment and bacterialanalysischemistry base chains dna frames govt haemophilus helicobacter influenzaegenetics markov non-phs open phs pylorigenetics reading research sensitivity sequence software specificity support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:17 as **
  • GAZE: a generic framework for the integration of gene-prediction data by dynamic programming
    Genome Res, Vol. 12, No. 9. (Sep 2002), pp. 1418-1427.
    by KL Howe, T Chothia, R Durbin
    posted to 0400 20021031 acid algorithms alignment and animals biologymethodsstatistics caenorhabditis comparative computational data databases elegansgenetics factual forecastingmethods genes genetic genome govt helminthgenetics homology information internet models non-us nucleic numerical probability research retrievalstatistics rna sequence sites software storage structural study support tagged trans-splicinggenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:15 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 **
  • Identification of protein coding regions in the human genome by quadratic discriminant analysis
    Proc Natl Acad Sci U S A, Vol. 94, No. 2. (Jan 1997), pp. 565-568.
    by MQ Zhang
    posted to 0001 19970121 analysis base data dnamethods exons genes genome govt human humans molecular multivariate phs project proteinsgenetics research sequence software structural support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:08:08 as **
  • The Ensembl automatic gene annotation system
    Genome Res, Vol. 14, No. 5. (May 2004), pp. 942-950.
    by V Curwen, E Eyras, TD Andrews, L Clarke, E Mongin, SM Searle, M Clamp
    posted to 0500 biologymethods computational helminth helminthgenetics helminthphysiology mice structural support tandem tests 20040818 acid dnagenetics dosage human proteinsgenetics pseudogenesgenetics sequence tags untranslated us value animals anophelesgenetics caenorhabditisgenetics comparative genome homology insect insectphysiology non-us predictive rats regionsgenetics repeat sequencesgenetics amino dna gene govt of phs software study alignmentmethods automation expressed genes humans research structuralphysiology by kaspermunch to the group Bioinformatics on 2006-11-02 10:07:49 as **
  • ESTGenes: alternative splicing from ESTs in Ensembl
    Genome Res, Vol. 14, No. 5. (May 2004), pp. 976-987.
    by E Eyras, M Caccamo, V Curwen, M Clamp
    posted to alternative comparative computational rats research animals expressed genetic insect support us caenorhabditis culicidaegenetics elegansgenetics humans mice results structural 0500 20040818 biology caenorhabditisgenetics dna genes govt helminthgenetics non-us phs predictive splicinggenetics value helminth of reproducibility sequence software study tags tests transcription zebrafishgenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:07:38 as **
  • Evaluation of gene prediction software using a genomic data set: application to Arabidopsis thaliana sequences
    Bioinformatics, Vol. 15, No. 11. (Nov 1999), pp. 887-899.
    by N Pavy, S Rombauts, P Dehais, C Mathe, DV Ramana, P Leroy, P Rouze
    posted to alternative contig dnamethods exonsgenetics sequence splicinggenetics study 20000608 computational evaluation reproducibility software studies support comparative mappingmethods 0900 arabidopsisgenetics genetic govt of protein research results validation analysis biologymethods databases factual genome models non-us plant by kaspermunch to the group Bioinformatics on 2006-11-02 10:07:26 as **
  • An assessment of gene prediction accuracy in large DNA sequences
    Genome Res, Vol. 10, No. 10. (Oct 2000), pp. 1631-1642.
    by R Guigo, P Agarwal, JF Abril, M Burset, JW Fickett
    posted to genes of software composition reproducibility research 1001 humans non-us results structuralgenetics support 20010228 computational dnachemistrygenetics artificialchemistrygenetics base biologymethods chromosomes govt by kaspermunch to the group Bioinformatics on 2006-11-02 10:07:21 as **
  • Hidden Markov models for sequence analysis: extension and analysis of the basic method
    Comput Appl Biosci, Vol. 12, No. 2. (Apr 1996), pp. 95-107.
    by R Hughey, A Krogh
    posted to amino factual models 0001 algorithms chains studies alignmentmethodsstatistics evaluation govt homology non-us sequence acid analysismethodsstatistics data domainsgenetics humans markov numerical src statistical support us 19960401 animals base databases non-phs research software by kaspermunch to the group Bioinformatics on 2006-11-02 10:07:09 as **
  • Comparative ab initio prediction of gene structures using pair HMMs
    Bioinformatics, Vol. 18, No. 10. (Oct 2002), pp. 1309-1318.
    by IM Meyer, R Durbin
    posted to databases software specificity alignmentmethods chains mice sequence 0500 algorithms comparative exonsgenetics expression genetic models regulation analysis animals markov proteomicsmethods research study 20030506 acid and dnamethods gene govt humans non-us nucleic of reproducibility results sensitivity support by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:59 as **
  • 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 **
  • A generalized hidden Markov model for the recognition of human genes in DNA
    Proc Int Conf Intell Syst Mol Biol, Vol. 4 (1996), pp. 134-142.
    by D Kulp, D Haussler, MG Reese, FH Eeckman
    posted to 0001 19960101 chains chromosomes deletion dnachemistry exons genetic govt humanchemistry humans introns markov models non-phs research sequence software support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:55 as **
  • Feature selection for splice site prediction: a new method using EDA-based feature ranking
    BMC Bioinformatics, Vol. 5, No. 1. (May 2004)
    by Y Saeys, S Degroeve, D Aeyels, P Rouze, Y Van de Peer
    posted to 0500 20040826 adenosinemetabolism algorithms arabidopsisgenetics base biologymethodsstatistics chromosomes comparative compositiongenetics computational data databases genetic guaninemetabolism numerical of plantclassificationgenetics plantgenetics predictive rna sitesgenetics software softwarestatistics splice study tests validation value by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:54 as **
  • BLAT--the BLAST-like alignment tool
    Genome Res, Vol. 12, No. 4. (Apr 2002), pp. 656-664.
    by WJ Kent
    posted to 1001 20020427 alignmentmethodsstatistics animals biologymethodsstatistics computational data dnagenetics genetic govt human messengergenetics mice numerical phs proteinschemistry rna sequence software support translation us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:54 as **
  • Genie--gene finding in Drosophila melanogaster
    Genome Res, Vol. 10, No. 4. (Apr 2000), pp. 529-538.
    by MG Reese, D Kulp, H Tammana, D Haussler
    posted to 0900 20000617 analysis animals biologymethods chains comparative computational databases dnamethods drosophila expressed factual genes genetic geneticsgenetics govt insectgenetics markov melanogastergenetics models non-phs phs promoter regions sequence software structural study support tags us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:52 as **
  • Prediction of complete gene structures in human genomic DNA
    J Mol Biol, Vol. 268, No. 1. (Apr 1997), pp. 78-94.
    by C Burge, S Karlin
    posted to 0001 19970425 analysis animals chains comparative data dna exons genes genetic genetics genome govt human introns markov models molecular non-phs phs probability promoter proteinsgenetics regions rna sequence software splicing study support us vertebratesgenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:51 as **
  • GeneMark.hmm: new solutions for gene finding
    Nucleic Acids Res, Vol. 26, No. 4. (Feb 1998), pp. 1107-1115.
    by AV Lukashin, M Borodovsky
    posted to 0001 19980321 algorithms bacterial bacterialgenetics base chains coligenetics comparative databases dna escherichia evaluation factual genes genetic genome govt markov models phs sequence software studies study support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:51 as **
  • Evaluation of gene-finding programs on mammalian sequences
    Genome Res, Vol. 11, No. 5. (May 2001), pp. 817-832.
    by S Rogic, AK Mackworth, FB Ouellette
    posted to 1001 20010629 analysis animals base comparative composition cytosineanalysis dnamethods exonsgenetics functions genes genetic govt guanineanalysis human likelihood models non-us phylogeny sequence software species specificity structural study support by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:49 as **
  • GeneMarkS: a self-training method for prediction of gene starts in microbial genomes. Implications for finding sequence motifs in regulatory regions
    Nucleic Acids Res, Vol. 29, No. 12. (Jun 2001), pp. 2607-2618.
    by J Besemer, A Lomsadze, M Borodovsky
    posted to 1001 20010728 algorithms alignment and archaeal archaealgenetics bacillus bacterial bacterialgenetics base biologymethods chains codon coligenetics computational computer databases escherichia evolution framesgenetics functions genes geneticgenetics genome initiatorgenetics internet likelihood markov molecular of open overlappinggenetics reading reproducibility results sensitivity sequence simulation software specificity subtilisgenetics transcription translation by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:46 as **
  • GeneID in Drosophila
    Genome Res, Vol. 10, No. 4. (Apr 2000), pp. 511-515.
    by G Parra, E Blanco, R Guigo
    posted to 0900 20000617 alcohol algorithms animals biology computational databases dehydrogenasegenetics drosophila factual genes govt insectgenetics melanogasterenzymologygenetics non-us software structural support by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:46 as **
  • AUGUSTUS: a web server for gene finding in eukaryotes
    Nucleic Acids Res, Vol. 32, No. Web Server issue. (Jul 2004), pp. W309-W312.
    by M Stanke, R Steinkamp, S Waack, B Morgenstern
    posted to 0500 20040821 animals chains drosophila genes genome genomics human interface internet introns markov melanogastergenetics software user-computer by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:46 as **
  • PyEvolve: a toolkit for statistical modelling of molecular evolution
    BMC Bioinformatics, Vol. 5, No. 1. (Jan 2004)
    by A Butterfield, V Vedagiri, E Lang, C Lawrence, MJ Wakefield, A Isaev, GA Huttley
    posted to 1000 20040621 animals benchmarkingstatistics comparative data design evolution functions genetic gorilla gorillagenetics govt human likelihood mice models molecular mutagenesisgenetics non-us numerical pan rats software softwarestatistics study support troglodytesgenetics by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:45 as **
  • A systematic approach to dynamic programming in bioinformatics
    Bioinformatics, Vol. 16, No. 8. (Aug 2000), pp. 665-677.
    by R Giegerich
    posted to 1001 20010228 algorithms alignmentmethods biology computational govt non-us sequence software support by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:37 as **
  • Using database matches with for HMMGene for automated gene detection in Drosophila
    Genome Res, Vol. 10, No. 4. (Apr 2000), pp. 523-528.
    by A Krogh
    posted to 0900 20000617 acid alcohol analysis and animals biologystatistics chains comparative computational computer-assisted data databases dehydrogenasegenetics drosophila factual genes govt homology insectgenetics markov melanogasterenzymologygenetics non-us nucleic numerical sensitivity sequence software specificity structural study support by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:36 as **
  • Gene finding in novel genomes
    BMC Bioinformatics, Vol. 5, No. 1. (May 2004)
    by I Korf
    posted to 0500 20040728 animals arabidopsisgenetics biologymethods caenorhabditis computational databases drosophila elegansgenetics genes genetic geneticsgenetics genome govt helminthgenetics insectgenetics melanogastergenetics non-us of phs plant plantgenetics predictive software structural structuralgenetics support tests us value variation by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:28 as **
  • Pre-mRNA secondary structure prediction aids splice site prediction
    Pac Symp Biocomput (2002), pp. 223-234.
    by DJ Patterson, K Yasuhara, WL Ruzzo
    posted to 0400 20021003 acid analysis computer conformation exons functions genetic govt likelihood messengerchemistrygenetics models non-phs nucleic of precursorschemistry reproducibility results rna sequence simulation software splicing support us by kaspermunch to the group Bioinformatics on 2006-11-02 10:06:20 as **
  • metaSHARK: software for automated metabolic network prediction from DNA sequence and its application to the genomes of Plasmodium falciparum and Eimeria tenella
    Nucleic Acids Research, Vol. 33, No. 4., pp. 1399-1409.
    by W Pinney, W Shirley, A Mcconkey, R Westhead
    posted to metabolic network prediction reconstruction sequence software systems by bsmagic to the group Bioinformatics on 2006-08-01 21:24:10 as ** along with 4 people and 1 group jmeppley eweaver shung