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Group: Bioinformatics - with tag assembly [30 articles]

Recent papers posted by members of the Bioinformatics group with tag assembly
  • A new pheromone trail-based genetic algorithm for comparative genome assembly
    Nucl. Acids Res. (29 April 2008), gkn168.
    by Fangqing Zhao, Fanggeng Zhao, Tao Li, Donald A Bryant
    posted to genomics genome bioinformatics assembly by fqzhao to the group Bioinformatics on 2008-05-07 21:28:04 as read
  • Genomic surgery for lung cancer.
    J Surg Res, Vol. 117, No. 1. (2004), pp. 107-13.
    by DS Schrump
    posted to genome-chromatin use therapygeneticstherapy regulation peptides neoplasticdrug neoplasmsdrug methylation lung humans histone genetic gene expression engineeringmethods effects dna disassemblydrug derivativespharmacologytherapeutic depsipeptides deacetylases cyclicpharmacologytherapeutic chromatin azacitidineanalogs assembly antineoplastic animals and agentspharmacologytherapeutic by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:49 as **** along with 1 group ProkaryoteInterestGroup
  • Methyl-CpG binding protein MBD1 couples histone H3 methylation at lysine 9 by SETDB1 to DNA replication and chromatin assembly.
    Mol Cell, Vol. 15, No. 4. (2004), pp. 595-605.
    by SA Sarraf, I Stancheva
    posted to macromolecular lysinemetabolism islands interferingmetabolism humans histonesmetabolism hela govt genetics gene factors dna-binding dna disassembly cpg chromatin cells carrier biological assembly and genome-chromatin two-hybrid transcription techniques system support substances small silencing s rna research replication regions proteinsmetabolism proteinsgeneticsmetabolism proteinsgenetics protein promoter phase non-us models methyltransferasesmetabolism methylation by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:48 as **** along with 1 group ProkaryoteInterestGroup
  • [How the methyl-CpG binding protein-related epigenetic disease turns on the genes that produce its symptoms]
    Tanpakushitsu Kakusan Koso, Vol. 50, No. 8. (2005), pp. 978-84.
    by S Horike
    posted to genome-chromatin transcription syndromegenetics rett repressor proteinsgenetics proteins protein non-histonegenetics mutation methyl-cpg-binding imprintinggenetics humans homeodomain histones genomic female factors dna-binding disassemblygenetics chromosomal chromatingenetics chromatin assembly animals and 2 by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:47 as **** along with 1 group ProkaryoteInterestGroup
  • Chromatin organization during spermiogenesis in Octopus vulgaris. I: Morphological structures.
    Mol Reprod Dev, Vol. 68, No. 2. (2004), pp. 223-31.
    by E Ribes, Gimenez P Bonafe, Martinez F Soler, A Gonzalez, N Saperas, HE Kasinsky, M Chiva
    posted to genome-chromatin support spermatogenesisphysiology research octopodiformesphysiology nuclear non-us matrixmetabolism male govt disassemblyphysiology chromatinphysiology chromatin assembly animals and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:45 as **** along with 1 group ProkaryoteInterestGroup
  • Gene targeting in plants: fingers on the move.
    Trends Plant Sci, Vol. 11, No. 4. (2006), pp. 159-61.
    by S Kumar, GC Allen, WF Thompson
    posted to genome-chromatin zinc us targetingmethods support research repair recombination plantsgenetics plant non-us non-phs govt genome genetic gene fingersphysiology endodeoxyribonucleaseschemistrymetabolism dna disassembly chromatin assembly and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:43 as **** along with 1 group ProkaryoteInterestGroup
  • Nucleosome assembly protein-1 is a linker histone chaperone in Xenopus eggs.
    Proc Natl Acad Sci U S A, Vol. 102, No. 23. (2005), pp. 8210-5.
    by K Shintomi, M Iwabuchi, H Saeki, K Ura, T Kishimoto, K Ohsumi
    posted to govt female extracts disassembly data cycle chromatin chaperonesmetabolism cell assembly animals and amino acid genome-chromatin xenopusmetabolism support spermatozoametabolism sequence research proteinsgeneticsmetabolism proteins oocytesmetabolism nucleosomeschemistrymetabolism nuclear non-us molecular male histonesmetabolism by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:43 as **** along with 1 group ProkaryoteInterestGroup
  • The radioresistance kinase TLK1B protects the cells by promoting repair of double strand breaks.
    BMC Mol Biol, Vol. 6 (2005)
    by Sunavala G Dossabhoy, SK Balakrishnan, S Sen, S Nuthalapaty, A De Benedetti
    posted to genome-chromatin transfection tolerance support research repair radiation protein-serine-threonine plasmids phosphorylation non-us line kinasesgeneticsphysiology ionizing humans histonesmetabolism govt dna disassembly damage chromatin cell assembly animals and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:42 as **** along with 1 group ProkaryoteInterestGroup
  • Use of bifunctional cross-linking reagents in mapping genomic distribution of chromatin remodeling complexes.
    Methods, Vol. 33, No. 1. (2004), pp. 81-5.
    by N Fujita, PA Wade
    posted to genome-chromatin regions reagents promoter mappingmethods humans genomicsmethods genetics disassemblygeneticsphysiology cultured cross-linking chromosome chromatingeneticsphysiology chromatin cells assembly animals and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:41 as **** along with 1 group ProkaryoteInterestGroup
  • Solution structure of the SWIRM domain of human histone demethylase LSD1.
    Structure, Vol. 14, No. 3. (2006), pp. 457-68.
    by N Tochio, T Umehara, S Koshiba, M Inoue, T Yabuki, M Aoki, E Seki, S Watanabe, Y Tomo, M Hanada, M Ikari, M Sato, T Terada, T Nagase, O Ohara, M Shirouzu, A Tanaka, T Kigawa, S Yokoyama
    posted to specificity sequence research proteins protein oxidoreductases non-us n-demethylatingchemistrygenetics motifs molecular models histonesanalysismetabolism helix-turn-helix govt factorsanalysischemistry factors dna-binding disassembly data conformation chromatin assembly and amino acid genome-chromatin transcription time tertiary support substrate structure by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:41 as **** along with 1 group ProkaryoteInterestGroup
  • A heterochromatin barrier partitions the fission yeast centromere into discrete chromatin domains.
    Curr Biol, Vol. 16, No. 2. (2006), pp. 119-29.
    by KC Scott, SL Merrett, HF Willard
    posted to genome-chromatin transfer support site-directed silencing sequence segregationgeneticsphysiology schizosaccharomycescytologygeneticsgrowth rna research regulation non-us mutagenesis molecular meiosisphysiology heterochromatinchemistrygeneticsphysiology govt gene fungal expression disassembly development deletion data chromosome chromatin centromerechemistrygenetics base assembly and alagenetics by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:40 as **** along with 1 group ProkaryoteInterestGroup
  • Functional genomic analysis of CAF-1 mutants in Arabidopsis thaliana.
    J Biol Chem, Vol. 281, No. 14. (2006), pp. 9560-8.
    by N Schonrock, V Exner, A Probst, W Gruissem, L Hennig
    posted to genome-chromatin transcription support silencing research proteinsbiosynthesisgenetics proteins profiling non-us non-histonebiosynthesisgenetics mutational molecular heterochromatinmetabolism govt genetic gene expression dna-binding dna disassemblygenetics chromosomal chromatin chaperones assembly arabidopsisgenetics and analysis by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:39 as **** along with 1 group ProkaryoteInterestGroup
  • Promoter occupancy is a major determinant of chromatin remodeling enzyme requirements.
    Mol Cell Biol, Vol. 25, No. 7. (2005), pp. 2698-707.
    by A Dhasarathy, MP Kladde
    posted to genome-chromatin us transcription trans-activatorsmetabolism time support sites saccharomyces research regulation regions proteinsmetabolism proteinsgeneticsmetabolism protein promoter phs phosphatespharmacology nuclear non-us kinasesmetabolism immunoprecipitation histone govt geneticsgenetics gene fungal factorsmetabolism factors expression effectsenzymologygenetics dna-binding disassembly chromatingeneticsmetabolism chromatin cerevisiaedrug cerevisiae binding assembly and acetyltransferases by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:38 as **** along with 1 group ProkaryoteInterestGroup
  • [Transcriptome and non-coding RNAs: so many mRNA-like non-coding RNAs are really functional?]
    Tanpakushitsu Kakusan Koso, Vol. 49, No. 16. (2004), pp. 2521-8.
    by A Kanai
    posted to genome-chromatin untranslatedclassificationgeneticsphysiology transcription sequence rna reading open messenger imprintinggenetics humans genomic geneticgenetics genetic frames dosage dna disassemblygenetics computational complementary compensation chromatin biology assembly antisense animals and analysis by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:36 as **** along with 1 group ProkaryoteInterestGroup
  • Poly(ADP-ribosyl)ated chromatin domains: access granted.
    J Cell Sci, Vol. 117, No. Pt 6. (2004), pp. 815-25.
    by M Rouleau, RA Aubin, GG Poirier
    posted to genome-chromatin transcription support ribosemetabolism research proteins polymerases polyadp-ribose poly nucleusmetabolism nucleic non-us non-histonemetabolism nadmetabolism humans histonesmetabolism govt genetic dnametabolism disassemblyphysiology diphosphate conformation chromosomesmetabolism chromosomal chromatinmetabolism chromatin cell assembly apoptosisphysiology animals and adenosine acid by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:35 as **** along with 1 group ProkaryoteInterestGroup
  • Transcriptional repression and heterochromatin formation by MBD1 and MCAF/AM family proteins.
    J Biol Chem, Vol. 280, No. 14. (2005), pp. 13928-35.
    by T Ichimura, S Watanabe, Y Sakamoto, T Aoto, N Fujita, M Nakao
    posted to genome-chromatin transcription support sp1 silencing sequence research repressor regulation recombinant proteinsgeneticsmetabolism protein non-us multiprotein multigene molecular mice methyltransferasesgeneticsmetabolism humans heterochromatinmetabolism hela govt genetic gene fusion family factorsgeneticsmetabolism factorgeneticsmetabolism expression epigenesis dna-binding disassembly data complexes chromatin cells assembly animals and amino alignment acid by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:33 as **** along with 1 group ProkaryoteInterestGroup
  • Distinct roles for the RSC and Swi/Snf ATP-dependent chromatin remodelers in DNA double-strand break repair.
    Genes Dev, Vol. 19, No. 14. (2005), pp. 1656-61.
    by B Chai, J Huang, BR Cairns, BC Laurent
    posted to genome-chromatin us triphosphatemetabolism transcription temperature support saccharomyces research repair recombination proteinsgeneticsmetabolism phs nih mutation kinetics govt genetic genes fungal factorsgeneticsmetabolism extramural dna-binding dna disassembly chromatin cerevisiaegeneticsmetabolism cerevisiae assembly and adenosine by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:33 as **** along with 1 group ProkaryoteInterestGroup
  • ATP-dependent chromatin-remodeling complexes in DNA double-strand break repair: remodeling, pairing and (re)pairing.
    Cell Cycle, Vol. 4, No. 12. (2005), pp. 1713-5.
    by J Huang, B Liang, J Qiu, BC Laurent
    posted to genome-chromatin triphosphatemetabolism support research repair pairing nih multiprotein extramural dna disassembly damage complexesmetabolism chromosome chromatingeneticsmetabolism chromatin assembly animals and adenosinetriphosphatasemetabolism adenosine by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:30 as **** along with 1 group ProkaryoteInterestGroup
  • Transition nuclear proteins are required for normal chromatin condensation and functional sperm development.
    Genesis, Vol. 38, No. 4. (2004), pp. 200-13.
    by M Zhao, CR Shirley, S Hayashi, L Marcon, B Mohapatra, R Suganuma, RR Behringer, G Boissonneault, R Yanagimachi, ML Meistrich
    posted to genome fluorescence disassembly developmentmetabolismpathology chromosomal chromatingeneticsmetabolism chromatin assembly animals and agingphysiology genome-chromatin us support spermatozoacytologygrowth spermatogenesis research proteins protaminesmetabolism phs non-us non-histonedeficiencygeneticsmetabolism mutationgenetics microscopy mice malegeneticspathology male knockout infertility histonesmetabolism govt by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:29 as **** along with 1 group ProkaryoteInterestGroup
  • H2AX: tailoring histone H2A for chromatin-dependent genomic integrity.
    Biochem Cell Biol, Vol. 83, No. 4. (2005), pp. 505-15.
    by A Li, Eirin JM Lopez, J Ausio
    posted to genome-chromatin transcription support sequence research repairphysiology phosphorylation non-us molecular instability humans homology histonesgeneticsmetabolism govt genomic geneticphysiology dna disassemblyphysiology data chromatin assembly animals and amino acid by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:28 as **** along with 1 group ProkaryoteInterestGroup
  • Multigenerational selection and detection of altered histone acetylation and methylation patterns: toward a quantitative epigenetics in Drosophila.
    Methods Mol Biol, Vol. 287 (2004), pp. 151-68.
    by MD Garfinkel, VE Sollars, X Lu, DM Ruden
    posted to genome-chromatin us trait testsmethods techniques support selection research quantitative proteinsantagonists precipitin phs non-us molecular methylation male loci inhibitors hydroxamic hsp90 histonesanalysismetabolism heat-shock govt genetics genetic female epigenesis drosophilagenetics dna disassembly chromatin biologymethods assembly animals and acidspharmacology acetylation by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:26 as **** along with 1 group ProkaryoteInterestGroup
  • FGF2-induced chromatin remodeling regulates CNTF-mediated gene expression and astrocyte differentiation.
    Nat Neurosci, Vol. 7, No. 3. (2004), pp. 229-35.
    by MR Song, A Ghosh
    posted to genome-chromatin us transductiondrug transcription trans-activatorsdrug support stem stat1 signal research regulation regions rats proteinsdrug proteindrug promoter phs non-us neurotrophic methylationdrug lysinemetabolism histonesdrug growth govt glial geneticsdrug gene fibroblast fibrillary fetus factorsdrug factormetabolismpharmacology factor expression effectsmetabolism effectsgeneticsmetabolism effectsgenetics effects dna-binding disassemblydrug differentiationdrug developmentaldrug cultured cortexcytologyembryologymetabolism ciliary chromatin cerebral cellscytologydrug cells cell astrocytescytologydrug assembly animals and acidic 2metabolismpharmacology by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:24 as **** along with 1 group ProkaryoteInterestGroup
  • ATP-dependent nucleosome remodeling complexes: enzymes tailored to deal with chromatin.
    J Cell Biochem, Vol. 91, No. 6. (2004), pp. 1087-98.
    by S Sif
    posted to non-us neoplasmsmetabolism humans govt geneticphysiology gene expression drosophila dnametabolism divisionphysiology disassemblyphysiology chromatin cerevisiae cell assembly animals and adenosine genome-chromatin us triphosphatemetabolism transcription support saccharomyces research regulation proteinsmetabolism phs nucleosomesmetabolism nuclear by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:23 as **** along with 1 group ProkaryoteInterestGroup
  • TFIIIB subunit Bdp1p is required for periodic integration of the Ty1 retrotransposon and targeting of Isw2p to S. cerevisiae tDNAs.
    Genes Dev, Vol. 19, No. 8. (2005), pp. 955-64.
    by N Bachman, ME Gelbart, T Tsukiyama, JD Boeke
    posted to genome-chromatin us transfergenetics transcription tfiiibgenetics support subunitsgenetics study specificity species saccharomyces rna retroelementsgenetics research recombination reaction proteinsgenetics protein primers polymerase phs nucleosomesgeneticsmetabolism nih immunoprecipitation govt geneticgenetics factorsgenetics factor extramural dna disassemblygenetics comparative chromatin chain cerevisiaegenetics cerevisiae assembly and adenosinetriphosphatasegenetics by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:22 as **** along with 1 group ProkaryoteInterestGroup
  • Identification of SATB2 as the cleft palate gene on 2q32-q33.
    Hum Mol Genet, Vol. 12, No. 19. (2003), pp. 2491-501.
    by DR Fitzpatrick, IM Carr, L Mclaren, JP Leek, P Wightman, K Williamson, P Gautier, N Mcgill, C Hayward, H Firth, AF Markham, JA Fantes, DT Bonthron
    posted to genome-chromatin weight translocation transcription tertiary support study structure situ sequence research regulation reading proteins protein physical phylogeny palategenetics palatecytology pair open non-us motifs molecular mice mapping in hybridization humans human homology govt genetic genes gene frames fluorescence expression exons drosophila disassemblygenetics developmental data cultured comparative cleft chromosomes chromosome chromatin cells base assembly animals and amino acid 2 by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:18 as **** along with 1 group ProkaryoteInterestGroup
  • ATP-dependent chromatin remodeling and DNA double-strand break repair.
    Cell Cycle, Vol. 4, No. 8. (2005), pp. 1011-4.
    by H van Attikum, SM Gasser
    posted to adenosine genome-chromatin triphosphatechemistry transcription support saccharomyces research repair recombination proteinschemistry phosphorylation nucleosomeschemistrymetabolism non-us models histoneschemistry govt genetic factorschemistry dnachemistry dna-binding dna disassembly damage chromatinchemistry chromatin cerevisiae biological assembly arabidopsismetabolism and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:17 as **** along with 1 group ProkaryoteInterestGroup
  • The role of mammalian DNA methyltransferases in the regulation of gene expression.
    Cell Mol Biol Lett, Vol. 10, No. 4. (2005), pp. 631-47.
    by Turek J Plewa, PP Jagodzinski
    posted to genome-chromatin transcription support research regulation protein non-us isoforms humans govt genetic gene expression epigenesis dna disassembly cytosine-5--methyltransferasechemistrymetabolism chromatin assembly animals and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:17 as **** along with 1 group ProkaryoteInterestGroup
  • Chromatin remodeling and the maintenance of genome integrity.
    Biochim Biophys Acta, Vol. 1677, No. 1-3. (2004), pp. 158-64.
    by S Allard, JY Masson, J Cote
    posted to genome-chromatin variation u1 triphosphatemetabolism support substances small rna-binding ribonucleoprotein research repairgenetics proteins nucleargeneticsmetabolism non-us macromolecular humans histonesgeneticsmetabolism histone govt genome genetics drosophila dna disassembly chromatin assembly animals and adenosine acetyltransferasesgeneticsmetabolism acetyltransferases by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:12 as **** along with 1 group ProkaryoteInterestGroup
  • Polycomb group complexes self-regulate imprinting of the Polycomb group gene MEDEA in Arabidopsis.
    Curr Biol, Vol. 16, No. 5. (2006), pp. 486-92.
    by PE Jullien, A Katz, M Oliva, N Ohad, F Berger
    posted to genome-chromatin us support silencing seedsgeneticsmetabolism research repressor regulation proteinsmetabolismphysiology proteinsgeneticsmetabolism protein processing post-translational plant non-us non-phs models methylation imprinting immunoprecipitation histonesmetabolism govt genomic genetic gene expression disassembly development chromatin assembly arabidopsisembryologygeneticsgrowth arabidopsis and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:11 as **** along with 1 group ProkaryoteInterestGroup
  • RNA-interference-directed chromatin modification coupled to RNA polymerase II transcription.
    Nature, Vol. 435, No. 7046. (2005), pp. 1275-9.
    by V Schramke, DM Sheedy, AM Denli, C Bonila, K Ekwall, GJ Hannon, RC Allshire
    posted to genome-chromatin viral transcription support small schizosaccharomycesenzymologygenetics schizosaccharomyces rna ribonucleasesmetabolism research regulation proteinsmetabolism protein pombe polymerasesmetabolism polymerase non-us interferinggeneticsmetabolism interference iichemistrymetabolism govt genetic gene fungal expression dna-directed disassembly chromatingeneticsmetabolism chromatin centromeregeneticsmetabolism binding assembly and by sameetmehta to the group Bioinformatics on 2007-01-31 02:57:10 as **** along with 1 group ProkaryoteInterestGroup
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