1997
Using explicitly represented biological relationships for database navigation and searching via the World-Wide Web
Panzer S, Cooley L, Miller P. Using explicitly represented biological relationships for database navigation and searching via the World-Wide Web. Bioinformatics 1997, 13: 281-290. PMID: 9183533, DOI: 10.1093/bioinformatics/13.3.281.Peer-Reviewed Original ResearchConceptsWorld Wide WebCGI scriptsDatabase navigationDatabase schemaBiological databasesRetrieval capabilitiesHypertext linksPrototype databaseRelated entitiesDatabase entriesDifferent entitiesPublic useWebWealth of informationDatabaseHyperlinksInformationNavigationBiological relationshipsEntitiesSchemaRequestsScriptsCapabilityNew type
1984
Transcription factor binding is limited by the 5'-flanking regions of a Drosophila tRNAHis gene and a tRNAHis pseudogene.
Cooley L, Schaack J, Burke DJ, Thomas B, Söll D. Transcription factor binding is limited by the 5'-flanking regions of a Drosophila tRNAHis gene and a tRNAHis pseudogene. Molecular And Cellular Biology 1984, 4: 2714-2722. PMID: 6570190, PMCID: PMC369281, DOI: 10.1128/mcb.4.12.2714.Peer-Reviewed Original ResearchConceptsDrosophila Kc cell extractHeLa cell extractsCell extractsReal genesStable complex formationControl regionDeletion analysisStable transcription complex formationRecombinant clonesDrosophila tRNAArg geneTRNA gene clusterTranscription complex formationBona fide genesInternal control regionTranscription factor bindingSame DNA strandComplex formationTranscription control regionsConsecutive base pairsTRNAHis geneTRNAArg geneFide genesGene clusterTranscription factorsFactor bindingTranscriptionally active and inactive gene repeats within the D. meianogaster 5S RNA gene cluster
Sharp S, Garcia A, Cooley L, Söll D. Transcriptionally active and inactive gene repeats within the D. meianogaster 5S RNA gene cluster. Nucleic Acids Research 1984, 12: 7617-7632. PMID: 6093044, PMCID: PMC320189, DOI: 10.1093/nar/12.20.7617.Peer-Reviewed Original ResearchConceptsEfficiency of transcriptionRRNA gene copiesHigh transcription efficiencyTwo-nucleotide deletionD. melanogasterGene repeatRNA genesGene clusterPrimary transcriptGene copiesTranscription functionTranscription efficiencyTemplate activityCell extractsTranscriptionDNAPosition 28Position 86DNA typesRepeat unitsDeletionSame sequenceMelanogasterRRNAGenesThe extent of a eukaryotic tRNA gene. 5‘- and 3‘-flanking sequence dependence for transcription and stable complex formation.
Schaack J, Sharp S, Dingermann T, Burke DJ, Cooley L, Söll D. The extent of a eukaryotic tRNA gene. 5‘- and 3‘-flanking sequence dependence for transcription and stable complex formation. Journal Of Biological Chemistry 1984, 259: 1461-1467. PMID: 6693417, DOI: 10.1016/s0021-9258(17)43429-6.Peer-Reviewed Original ResearchConceptsStable complex formationBase pairsDrosophila Kc cell extractSequence requirementsCell extractsEukaryotic tRNA genesStable transcription complexesHeLa cell extractsTRNA genesComplex formationTranscription complexArg genesEfficient transcriptionTranscription assaysTranscription propertiesCell-free extractsTranscriptionHomologous systemGenesSequenceSequence dependenceCellular sourceExtractAssaysPairs
1983
Organization and Expression of tRNA Genes in Drosophila Melanogaster
Sharp S, Cooley L, DeFranco D, Dingermann T, Söll D. Organization and Expression of tRNA Genes in Drosophila Melanogaster. Recent Results In Cancer Research 1983, 84: 1-14. PMID: 6405456, DOI: 10.1007/978-3-642-81947-6_1.Peer-Reviewed Original ResearchConceptsProtein-synthesizing machineryCorrect amino acidCognate aminoacyl-tRNA synthetasesAminoacyl-tRNA synthetasesTransfer RNA moleculesSpecific recognition featuresStructure-function relationshipsTRNA genesDrosophila melanogasterTRNA speciesRNA moleculesGeneral structural featuresPolypeptide chainTRNAAmino acidsRegulatory processesUseful moleculesFunctional characteristicsStructural featuresIntegral componentRecognition featuresMelanogasterEfficient recognitionSynthetasesRibosomes
1982
Nonsense suppression in Schizosaccharomyces pombe: The S. pombe Sup3-e tRNASerUGA gene is active in S. cerevisiae
Hottinger H, Pearson D, Yamao F, Gamulin V, Colley L, Cooper T, Söll D. Nonsense suppression in Schizosaccharomyces pombe: The S. pombe Sup3-e tRNASerUGA gene is active in S. cerevisiae. Molecular Genetics And Genomics 1982, 188: 219-224. PMID: 6818425, DOI: 10.1007/bf00332678.Peer-Reviewed Original ResearchArrangement of the ribosomal RNA genes in Schizosaccharomyces pombe
Barnitz J, Cramer J, Rownd R, Cooley L, Söll D. Arrangement of the ribosomal RNA genes in Schizosaccharomyces pombe. FEBS Letters 1982, 143: 129-132. PMID: 6288447, DOI: 10.1016/0014-5793(82)80288-3.Peer-Reviewed Original Research