2015
Spatially resolved, highly multiplexed RNA profiling in single cells
Chen KH, Boettiger AN, Moffitt JR, Wang S, Zhuang X. Spatially resolved, highly multiplexed RNA profiling in single cells. Science 2015, 348: aaa6090. PMID: 25858977, PMCID: PMC4662681, DOI: 10.1126/science.aaa6090.Peer-Reviewed Original ResearchConceptsRNA speciesMultiplexed error-robust fluorescenceSingle-molecule imaging approachesDistinct RNA speciesIndividual cellsGene regulatory networksPairs of genesSingle cellsDistinct spatial distribution patternsUnannotated genesSingle-molecule labelingRegulatory networksNovel functionRNA profilingExpression profilesCellular behaviorCopy numberSitu hybridizationRich repertoireSpatial distribution patternsGenesDistribution patternsSpeciesCellsSpatial landscape
2014
Construction of Trypanosoma brucei Illumina RNA-Seq Libraries Enriched for Transcript Ends
Kolev NG, Ullu E, Tschudi C. Construction of Trypanosoma brucei Illumina RNA-Seq Libraries Enriched for Transcript Ends. Methods In Molecular Biology 2014, 1201: 165-175. PMID: 25388113, DOI: 10.1007/978-1-4939-1438-8_9.Peer-Reviewed Original ResearchConceptsHuman pathogen Trypanosoma bruceiHigh-throughput RNA sequencingLong polycistronic precursorsGenome-wide scaleIllumina RNA-seqPathogen Trypanosoma bruceiRNA polymerase IIRNA-seq librariesSingle-nucleotide resolutionTranscript endsTranscript boundariesTranscriptome annotationUnannotated genesPolymerase IICellular abundancePolycistronic precursorsTranscription initiationGene clusterRNA-seqPolyadenylation sitesRNA sequencingMRNA precursorsTrypanosoma bruceiRNA moleculesMRNA molecules
2009
Gene networks in Drosophila melanogaster: integrating experimental data to predict gene function
Costello J, Dalkilic M, Beason S, Gehlhausen J, Patwardhan R, Middha S, Eads B, Andrews J. Gene networks in Drosophila melanogaster: integrating experimental data to predict gene function. Genome Biology 2009, 10: r97. PMID: 19758432, PMCID: PMC2768986, DOI: 10.1186/gb-2009-10-9-r97.Peer-Reviewed Original ResearchConceptsDrosophila melanogasterGene networksGene functionExpression dataGene Ontology biological process annotationsHigh-throughput functional genomics dataEvidence of gene functionClusters of coregulated genesFunctional genomics dataNetwork of functional relationshipsMicroarray expression dataFunctional gene networksClasses of genesBiological process annotationsHigh-confidence networkProtein-protein interactionsGene expression dataUnannotated genesUncharacterized genesSequence similarityGenetic interactionsD. melanogasterMetazoan organismsGenomic dataProcess annotations
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