2025
Alternative splicing across the C. elegans nervous system
Weinreb A, Varol E, Barrett A, McWhirter R, Taylor S, Courtney I, Basavaraju M, Poff A, Tipps J, Collings B, Krishnaswamy S, Miller D, Hammarlund M. Alternative splicing across the C. elegans nervous system. Nature Communications 2025, 16: 4508. PMID: 40379606, PMCID: PMC12084653, DOI: 10.1038/s41467-025-58293-5.Peer-Reviewed Original ResearchConceptsAlternative splicingNeuronal genesDifferential alternative splicingNervous system of Caenorhabditis elegansC. elegans nervous systemSplicing regulatory networkUNC-40/DCCRNA featuresRegulatory networksSAX-3/RoboSplicing patternsCaenorhabditis elegansSplicingGene expressionGenesNeuronal identityNeuron typesWeb interfaceNervous systemMicroexonsTranscriptomeElegansRNANeurons
2024
Multi-omics profiling of DNA methylation and gene expression alterations in human cocaine use disorder
Zillich E, Belschner H, Avetyan D, Andrade-Brito D, Martínez-Magaña J, Frank J, Mechawar N, Turecki G, Cabana-Domínguez J, Fernàndez-Castillo N, Cormand B, Montalvo-Ortiz J, Nöthen M, Hansson A, Rietschel M, Spanagel R, Witt S, Zillich L. Multi-omics profiling of DNA methylation and gene expression alterations in human cocaine use disorder. Translational Psychiatry 2024, 14: 428. PMID: 39384764, PMCID: PMC11464785, DOI: 10.1038/s41398-024-03139-9.Peer-Reviewed Original ResearchConceptsCocaine use disorderUse disorderAlternative splicingHuman prefrontal cortexProfiling of DNA methylationBrodmann area 9Differential alternative splicingDeregulated biological processesPostmortem brain tissueMulti-omics approachCocaine intakeMulti-omics studiesPrefrontal cortexBrain alterationsMulti-omics profilingGene expression alterationsArea 9Fatty acid metabolismReceptor-targeting drugsSpliced transcriptsEpigenome-wideDNA methylationNeuronal morphogenesisAS changesDrug repositioning analysis
2021
OncoSplicing: an updated database for clinically relevant alternative splicing in 33 human cancers
Zhang Y, Yao X, Zhou H, Wu X, Tian J, Zeng J, Yan L, Duan C, Liu H, Li H, Chen K, Hu Z, Ye Z, Xu H. OncoSplicing: an updated database for clinically relevant alternative splicing in 33 human cancers. Nucleic Acids Research 2021, 50: d1340-d1347. PMID: 34554251, PMCID: PMC8728274, DOI: 10.1093/nar/gkab851.Peer-Reviewed Original ResearchConceptsAlternative splicingCancer-specific splicing eventsDifferential alternative splicingHuman cancersTCGA tumor samplesSplicing differencesSplicing eventsProtein complexityAdjacent normal samplesSplicingGene expressionSplicing dataNormal samplesAbnormal splicingIntegrative viewMRNA levelsDifferential analysisTumor samplesTranscripts
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