Nagham Farah, PhD, MSc
Postdoctoral Fellow in the Child Study CenterAbout
Research
Publications
2026
Gene expression dynamics of human and mouse craniofacial development at the single-cell level
Khouri-Farah N, Manchel A, Wentworth Winchester E, Schilder B, Robinson K, Curtis S, Skene N, Leslie-Clarkson E, Cotney J. Gene expression dynamics of human and mouse craniofacial development at the single-cell level. Nature Communications 2026, 17: 3714. PMID: 41803119, PMCID: PMC13102946, DOI: 10.1038/s41467-026-70232-6.Peer-Reviewed Original ResearchConceptscraniofacial developmenthuman craniofacial developmentsingle-nucleus RNA sequencingcell typesorofacial cleft patientsmouse craniofacial developmentprotein-altering variantsmouse developmental stagescleft patientsgene expression dynamicsepithelial subtypesgene expression networksorofacial cleftspost-conceptional weekstransient cell typescell subtypesrisk factorspost-conceptionfunctional conservationsingle-cell levelcranial neural crestsubtypesexpression networksexpression dynamicsfacial morphology
2025
Purkinje cell diversification: A blueprint for cerebellar development, patterning, and evolution
Li J, Khouri-Farah N, Miranda M. Purkinje cell diversification: A blueprint for cerebellar development, patterning, and evolution. Current Topics In Developmental Biology 2025, 167: 33-65. PMID: 42025365, DOI: 10.1016/bs.ctdb.2025.11.001.ChaptersEngineering human neuronal diversity: Morphogens and stem cell technologies for neurodevelopmental biology
Scuderi S, Khouri-Farah N, Rauthan R, Natu A, Wang H, Nelson A, Jourdon A, Vaccarino F. Engineering human neuronal diversity: Morphogens and stem cell technologies for neurodevelopmental biology. Stem Cell Reports 2025, 20: 102615. PMID: 40930068, PMCID: PMC12447334, DOI: 10.1016/j.stemcr.2025.102615.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsNeural tube patterningStem cell technologyTube patterningTranscription factor networksComplex assortmentFactor networksPluripotent stem cellsNeuronal cellsPatterns in vivoCell technologyProgenitor cellsEmbryonic tissuesNeurodevelopmental biologyBrain-on-chipNeuropsychiatric disordersHuman brain developmentStem cellsBrain developmentCellsBrain organoidsPatterning processMorphogenTranscriptionBrainStemFOXP genes regulate Purkinje cell diversity and cerebellar morphogenesis
. FOXP genes regulate Purkinje cell diversity and cerebellar morphogenesis. Nature Neuroscience 2025, 28: 2022-2033. PMID: 40826298, PMCID: PMC12497650, DOI: 10.1038/s41593-025-02042-w.Peer-Reviewed Original Research
2022
Integrated single-cell transcriptomic and epigenetic study of cell state transition and lineage commitment in embryonic mouse cerebellum
Khouri-Farah N, Guo Q, Morgan K, Shin J, Li J. Integrated single-cell transcriptomic and epigenetic study of cell state transition and lineage commitment in embryonic mouse cerebellum. Science Advances 2022, 8: eabl9156. PMID: 35363520, PMCID: PMC10938588, DOI: 10.1126/sciadv.abl9156.Peer-Reviewed Original ResearchConceptsgene regulatory networkscell state transitionsreverse engineer gene regulatory networksepigenetic studiescell fate specificationsingle-cellsingle-cell RNA sequencingrhombic lipcerebellar cell typesmammalian cerebellumcis-elementsregulatory networksfate specificationsingle-cell RNAregulatory logicintegrated single-cellRNA sequencingcellular diversityin silico simulationsdevelopmental programcellular heterogeneitymolecular controlcerebellar vermis hypoplasialineage commitmentembryonic mouse cerebellum
2020
Targeted delivery of mitochondria to the liver in rats
Liu X, Khouri‐Farah N, Wu C, Wu G. Targeted delivery of mitochondria to the liver in rats. Journal Of Gastroenterology And Hepatology 2020, 35: 2241-2247. PMID: 32386240, DOI: 10.1111/jgh.15091.Peer-Reviewed Original ResearchConceptsmitochondrial complexesAsOR-PLmouse mitochondrial DNAdelivery of mitochondriatargets mitochondrial complexesmitochondrial DNAquantitative polymerase chain reactionendosomal release agentendosomolytic peptidecarrier proteinmitochondrianormal mitochondriaDNA stainingmitochondrial damagepolymerase chain reactionmouse liverin situ polymerase chain reactionchain reactionrat liverliver cellslisteriolysinendosomesDNAprotein
2019
An Improved Method for Preparation of Uniform and Functional Mitochondria from Fresh Liver
. An Improved Method for Preparation of Uniform and Functional Mitochondria from Fresh Liver. Journal Of Clinical And Translational Hepatology 2019, 7: 46-50. PMID: 30944819, PMCID: PMC6441644, DOI: 10.14218/jcth.2018.00064.Peer-Reviewed Original Research
2018
FGF signaling controls Shh-dependent oligodendroglial fate specification in the ventral spinal cord
Farreny M, Agius E, Bel-Vialar S, Escalas N, Khouri-Farah N, Soukkarieh C, Danesin C, Pituello F, Cochard P, Soula C. FGF signaling controls Shh-dependent oligodendroglial fate specification in the ventral spinal cord. Neural Development 2018, 13: 3. PMID: 29519242, PMCID: PMC5842613, DOI: 10.1186/s13064-018-0100-2.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsChick EmbryoElectroporationFibroblast Growth FactorsGene Expression Regulation, DevelopmentalGreen Fluorescent ProteinsHedgehog ProteinsIn Vitro TechniquesNerve Tissue ProteinsOligodendrocyte Transcription Factor 2OligodendrogliaOrgan Culture TechniquesSignal TransductionSpinal CordStem CellsConceptsfibroblast growth factor signalingventral spinal cordoligodendrocyte precursor cellsfibroblast growth factorspinal cordprogenitor cellsOPC generationoligodendrocyte precursor cell specificationstem cellspMN progenitor cellsprecursor cellsinfluence of fibroblast growth factorslateral floor platefibroblast growth factor signaling pathwayspinal progenitor cellsdown-regulation of Olig2inhibition of FGF receptorsShh signaling centersfate specificationneural stem cellsfetal developmenttranscription factor Olig2Shh signalingsignaling centersoligodendrocyte fate
2014
Dynamics of Sonic hedgehog signaling in the ventral spinal cord are controlled by intrinsic changes in source cells requiring Sulfatase 1
Al Oustah A, Danesin C, Khouri-Farah N, Farreny M, Escalas N, Cochard P, Glise B, Soula C. Dynamics of Sonic hedgehog signaling in the ventral spinal cord are controlled by intrinsic changes in source cells requiring Sulfatase 1. Development 2014, 141: 1392-1403. PMID: 24595292, DOI: 10.1242/dev.101717.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsAnimals, Genetically ModifiedBody PatterningGene Expression Regulation, DevelopmentalGene Expression Regulation, EnzymologicGene Knockdown TechniquesHedgehog ProteinsMiceNeural Stem CellsNeurogenesisSignal TransductionSpinal CordSulfatasesSulfotransferasesZebrafishZebrafish ProteinsConceptstemporal sequence of gene expressioncell diversitygene expressionsequence of gene expressionShh-producing cellsventral spinal cordneural cell diversitysonic hedgehog signalingShh signaling activitylevel of regulationventral neural progenitorsglial cell subtypesspinal cordhedgehog signalinghigh-threshold responsessource cellsSonic hedgehogSulf1signaling activityShhsulfatase 1neural progenitorssequential generationventral interneuronscell subtypes