2021
Phylogenomic analyses of the genus Drosophila reveals genomic signals of climate adaptation
Li F, Rane R, Luria V, Xiong Z, Chen J, Li Z, Catullo R, Griffin P, Schiffer M, Pearce S, Lee S, McElroy K, Stocker A, Shirriffs J, Cockerell F, Coppin C, Sgrò C, Karger A, Cain J, Weber J, Santpere G, Kirschner M, Hoffmann A, Oakeshott J, Zhang G. Phylogenomic analyses of the genus Drosophila reveals genomic signals of climate adaptation. Molecular Ecology Resources 2021, 22: 1559-1581. PMID: 34839580, PMCID: PMC9299920, DOI: 10.1111/1755-0998.13561.Peer-Reviewed Original ResearchConceptsClimate generalistsDrosophila speciesGenus DrosophilaPhylogenomic analysisSignificant phylogenetic incongruenceEvolutionary genomic studiesMelanogaster species groupGenome-wide signalsDifferent climatic nichesHigh-quality assemblySmall population sizeIncomplete lineageSubgenus DrosophilaAsymmetric introgressionSubgenus SophophoraPhylogenetic incongruenceNew transcriptomesGene gainClimatic nicheGenome diversityNatural populationsWidespread speciesGenomic signalsSpecies groupsClimate niche
2011
Gene Duplication and Loss in a MADS Box Gene Transcription Factor Circuit
Lee HL, Irish VF. Gene Duplication and Loss in a MADS Box Gene Transcription Factor Circuit. Molecular Biology And Evolution 2011, 28: 3367-3380. PMID: 21712469, DOI: 10.1093/molbev/msr169.Peer-Reviewed Original ResearchConceptsGene duplicatesCore eudicotsGene gainEuasterids IMADS-box transcription factor geneTranscription factor circuitsB-class genesTranscription factor genesBox transcription factor genesProtein-protein interactionsLoss eventsParalog evolutionEvolutionary divergenceGene duplicationGene lossGene paralogsParalogous lineagesSequence diversificationClass genesSuch genesFloral morphologyGene networksPhylogenetic analysisObligate heterodimersProtein interactions
2009
Functional pathways analyses to identify candidate therapeutic targets in triple-negative breast cancer
Andre F, Dessen P, Job B, Delaloge S, Pusztai L, Lazar V. Functional pathways analyses to identify candidate therapeutic targets in triple-negative breast cancer. Journal Of Clinical Oncology 2009, 27: 569-569. DOI: 10.1200/jco.2009.27.15_suppl.569.Peer-Reviewed Original ResearchGene gainPathway analysisHigh resolution CGH arrayBRB-Array ToolsFunctional pathway analysisChromosome organizationTargetable pathwaysTriple-negative breast cancerMolecular classesGene setsCDNA arraysNotch pathwayCandidate therapeutic targetGenomic aberrationsNegative breast cancerCGH arrayHistonesPathway dysregulationPathwayGenesDifferential pathwaysVEGFA geneTherapeutic targetDysregulationHedgehog
2008
Structural and functional diversification in the teleost S100 family of calcium-binding proteins
Kraemer A, Saraiva L, Korsching S. Structural and functional diversification in the teleost S100 family of calcium-binding proteins. BMC Ecology And Evolution 2008, 8: 48. PMID: 18275604, PMCID: PMC2266712, DOI: 10.1186/1471-2148-8-48.Peer-Reviewed Original ResearchConceptsS100 genesS100 gene familyGene familyJawless fishEF-handPatterns of gene gainCartilaginous fishCalcium-binding proteinLocal gene duplicationS100 familyMammalian family membersCell typesCalcium-mediated signalingEF-hand calcium-binding proteinS100 family membersGenomic arrangementTeleost genomesIntron/exon bordersGene lossGene duplicationGene gainFunctional diversificationS100 subfamilyFamily membersEvolutionary origin
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