Massively parallel approaches for characterizing noncoding functional variation in human evolution
Rong S, Root E, Reilly S. Massively parallel approaches for characterizing noncoding functional variation in human evolution. Current Opinion In Genetics & Development 2024, 88: 102256. PMID: 39217658, DOI: 10.1016/j.gde.2024.102256.Peer-Reviewed Original ResearchCis-regulatory elementsFunction of cis-regulatory elementsImpact of sequence variantsHigh-throughput approachNoncoding variationGenome functionNoncoding regionsSequence variantsPhenotypic consequencesCRISPR screensGenetic basisGenetic variantsGenetic differencesDiverse phenotypesGene expressionRegulatory functionsHuman evolutionFunctional variationGenomeUnique phenotypePhenotypeRegulatory impactModel systemVariantsGenesMulticenter integrated analysis of noncoding CRISPRi screens
Yao D, Tycko J, Oh J, Bounds L, Gosai S, Lataniotis L, Mackay-Smith A, Doughty B, Gabdank I, Schmidt H, Guerrero-Altamirano T, Siklenka K, Guo K, White A, Youngworth I, Andreeva K, Ren X, Barrera A, Luo Y, Yardımcı G, Tewhey R, Kundaje A, Greenleaf W, Sabeti P, Leslie C, Pritykin Y, Moore J, Beer M, Gersbach C, Reddy T, Shen Y, Engreitz J, Bassik M, Reilly S. Multicenter integrated analysis of noncoding CRISPRi screens. Nature Methods 2024, 21: 723-734. PMID: 38504114, PMCID: PMC11009116, DOI: 10.1038/s41592-024-02216-7.Peer-Reviewed Original ResearchCis-regulatory elementsCRISPR interferenceSingle guide RNADetection of cis-regulatory elementsGuide RNAsCandidate cis-regulatory elementsNoncoding cis-regulatory elementsDNA strand biasGene regulatory landscapeCis-regulatory mechanismsNoncoding genomeNoncoding elementsTranscribed regionsStrand biasHuman cell linesCRISPR screensFunctional characterizationTranscriptional effectsGenomeK562 cellsRegulatory landscapeCell linesConsortium effortCharacterization CenterRNA