Faculty

Institution

Unit

Venue

John Ngai

Professor Emeritus

University of California, Berkeley

Affiliations

College of Letters & Science

Biological Sciences

Molecular and Cell Biology

John Ngai is currently serving as a Biological Sciences Professor Emeritus at University of California, Berkeley.

Honors

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Experiences

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Education

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John Ngai

University of California, Berkeley

Professor Emeritus

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neuroscience developmental biology cell biology genetics developmental neurobiology genomics neuroanatomy genome biology mammalian biology systems neuroscience fish biology sensory science gene expression bioinformatics cognitive neuroscience molecular neuroscience avian biology transcriptomics technology stem cell research cellular neurobiology molecular neurobiology rna biology brain science animal physiology data normalization animal behavior single-cell analysis animal science developmental science cellular physiology microarray data analysis neurochemistry gene function cell lineage epigenomics odorant receptor expression odorant receptor genes zoology protein science animal cognition cell research hearing research computational genomics sequence analysis mammalian physiology neurobiological mechanisms embryonic development developmental genetics gene regulation dopamine signaling pathways catfish olfactory epithelium vertebrate olfactory system zebrafish genome pseudotime inference single-cell transcriptomics science advance regularization (mathematics) molecular biotechnology viral pathogenesis viral genetics virus transmission electronic noses receptor (biochemistry) brain mechanisms neurotransmission neural mechanisms cdna microarray data robust composite method control genes factor analysis rna-seq data olfactory system non-neuronal expression mammalian olfactory epithelium spatial segregation computational biology developmental cell cell specialization cell fate determination developmental system neural regeneration regeneration (biology)

Video Presentations

Notable Scholarly Works

Notable Federal Grants

Collaborators

Brain @ 10: A Decade of Innovation. Neuron (2024)

John Ngai

neurologyneural interfacesneurorehabilitationneuroradiologybrain circuitryneuronal networksaffective neuroscienceneuroimagingneurosciencecognitive scienceneuronsbrain scienceneuroethicsbrain functionsystems neurosciencecognitive neurosciencecomputational neurosciencedevelopmental cognitive neuroscience

Improving Replicability in Single-Cell Rna-Seq Cell Type Discovery With Dune. BMC Bioinformatics (2024)

Hector Roux de BézieuxKelly StreetStephan FischerKoen Van den BergeRebecca ChanceDavide RissoJesse GillisJohn NgaiElizabeth PurdomSandrine Dudoit

single-cell analysisbioinformaticsrna biologycomputational biologytranscriptomics technologycell biology

Neocortical Long-Range Inhibition Promotes Cortical Synchrony and Sleep. bioRxiv (Cold Spring Harbor Laboratory) (2024)

Jacob M RatliffGeoffrey TerralStefano LutzuJaime HeissJulie MotaBianca StithArenski Vazquez LechugaCharu RamakrishnanLief E FennoTanya DaigleKarl DeisserothHongkui ZengJohn NgaiBosiljka TasicLucas SjulsonStephanie RudolphThomas S. KilduffRenata Batista-Brito

cortical synchronyneocortical long-range inhibitionneurosciencesystems neurosciencecognitive neurosciencesleep

A Latent Activated Olfactory Stem Cell State Revealed by Single-Cell Transcriptomic and Epigenomic Profiling. bioRxiv (Cold Spring Harbor Laboratory) (2023)

Koen Van den BergeDana BakalarHsin-Jung ChouDivya KundaDavide RissoKelly StreetElizabeth PurdomSandrine DudoitJohn NgaiWhitney E Heavner

single-cell analysisgene expression profilingsingle cell sequencingstem cellsgenomicsneurosciencegenome biologymolecular neuroscienceepigeneticsneurologymolecular cell biologytranscriptomics technologystem cell researchepigenomic profilingsingle cellmammalian biologymolecular biologydevelopmental neurobiologymedicinal researchepigenomics

Normalization Benchmark of Atac-Seq Datasets Shows the Importance of Accounting for Gc-Content Effects. Cell Reports Methods (2022)

Koen Van den BergeHsin-Jung ChouHector Roux de BézieuxKelly StreetDavide RissoJohn NgaiSandrine Dudoit

bioinformaticsstatistical methodologynormalization benchmarkatac-seq datasetsgc-content effectsdata sciencecell researchimmunologydata normalizationcell biologyanalytics

Advancing Scientific Excellence Through Inclusivity in the Nih Brain Initiative. Neuron (2021)

Ryan R. RichardsonDevon C. CrawfordJohn NgaiAndrea C. Beckel-Mitchener

scientific excellencescientific communicationneurosciencenih brain initiative

A Multimodal Cell Census and Atlas of the Mammalian Primary Motor Cortex. Nature (2021)

Edward M. CallawayHong-Wei DongJoseph R. EckerMichael J. HawrylyczZ. Josh HuangEd S. LeinJohn NgaiPavel OstenBing RenAndreas Savas ToliasOwen WhiteHongkui ZengXiaowei ZhuangGiorgio A. AscoliM. Margarita BehrensJerold ChunGuoping FengJames C. GeeSatrajit S. GhoshYaroslav O. HalchenkoRonna HertzanoByung Kook LimMaryann E. MartoneLydia NgLior PachterAlexander J. RopelewskiTimothy L. TickleX. William YangKun ZhangTrygve E. BakkenPhilipp BerensTanya L. DaigleJulie A. HarrisNikolas L. JorstadBrian E. KalmbachDmitry KobakYang Eric LiHanqing LiuKatherine S. MathoEran A. MukamelMaitham NaeemiFederico ScalaPengcheng TanJonathan T. TingFangming XieMeng ZhangZhuzhu ZhangJingtian ZhouBrian ZinggEthan ArmandZizhen YaoDarren BertagnolliTamara CasperKirsten CrichtonNick DeeDinh DiepSong-Lin DingWeixiu DongElizabeth L. DoughertyOlivia FongMelissa GoldmanJeff GoldyRebecca D. HodgeLijuan HuC. Dirk KeeneFenna M. KrienenMatthew KrollBlue B. LakeKanan LathiaSten LinnarssonChristine S. LiuEvan Z. MacoskoSteven A. McCarrollDelissa McMillenNaeem M. NadafThuc Nghi NguyenCarter R. PalmerThanh PhamNongluk PlongthongkumNora M. ReedAviv RegevChristine RimorinWilliam J. RomanowSteven SavoiaKimberly SilettiKimberly SmithJosef SulcBosiljka TasicMichael TieuAmy TorkelsonHerman TungCindy T. J. van VelthovenCharles R. VanderburgAnna Marie YannyRongxin FangXiaomeng HouJacinta D. LuceroJulia K. OsteenAntonio Pinto-DuarteOlivier Poirion

geneticsgenomicsneuroimagingmammalian biologyneuroscienceneuroanatomysystems neurosciencemultimodal cell censuscell biologycognitive neurosciencemicroarray data analysis

A Transcriptomic and Epigenomic Cell Atlas of the Mouse Primary Motor Cortex. Nature (2021)

Zizhen YaoHanqing LiuFangming XieStephan FischerRicky S. AdkinsAndrew I. AldridgeSeth A. AmentAnna BartlettM. Margarita BehrensKoen Van den BergeDarren BertagnolliHector Roux de BézieuxTommaso BiancalaniA. Sina BooeshaghiHéctor Corrada BravoTamara CasperCarlo ColantuoniJonathan CrabtreeHeather CreasyKirsten CrichtonMegan CrowNick DeeElizabeth L. DoughertyWayne I. DoyleSandrine DudoitRongxin FangVictor FelixOlivia FongMichelle GiglioJeff GoldyMike HawrylyczBrian R. HerbRonna HertzanoXiaomeng HouQiwen HuJayaram KancherlaMatthew KrollKanan LathiaYang Eric LiJacinta D. LuceroChongyuan LuoAnup MahurkarDelissa McMillenNaeem M. NadafJoseph R. NeryThuc Nghi NguyenSheng-Yong NiuVasilis NtranosJoshua OrvisJulia K. OsteenThanh PhamAntonio Pinto-DuarteOlivier PoirionSebastian PreisslElizabeth PurdomChristine RimorinDavide RissoAngeline C. RivkinKimberly SmithKelly StreetJosef SulcValentine SvenssonMichael TieuAmy TorkelsonHerman TungEeshit Dhaval VaishnavCharles R. VanderburgCindy van VelthovenXinxin WangOwen R. WhiteZ. Josh HuangPeter V. KharchenkoLior PachterJohn NgaiAviv RegevBosiljka TasicJoshua D. WelchJesse GillisEvan Z. MacoskoBing RenJoseph R. EckerHongkui ZengEran A. Mukamel

cellular neurobiologymammalian biologyneurosciencemolecular neurobiologyneuroanatomysystems biologymolecular neurosciencesystems neuroscienceepigenomicscognitive neurosciencemotor controlphysiology

Generation of a Dat-P2A-Flpo Mouse Line for Intersectional Genetic Targeting of Dopamine Neuron Subpopulations. Cell Reports (2021)

Daniel J. KramerErin E. AisenbergPolina KosilloDrew FriedmannDavid A. StaffordAngus Yiu-Fai LeeLiqun LuoDirk HockemeyerJohn NgaiHelen S. Bateup

geneticsdopamine neuron subpopulationsneurogeneticsneuroscienceintersectional genetic targetingcell biologydopamine

The Cellular Basis of Distinct Thirst Modalities. Yearbook of pediatric endocrinology (2021)

Allan-Hermann PoolTongtong WangDavid A StaffordRebecca K ChanceSangjun LeeJohn NgaiYuki Oka

developmental endocrinologyliver physiologycellular physiologycell biologymolecular and cellular biologycellular nutritionmembrane biologypediatricschild developmentcomparative endocrinologymammalian biologycellular basiscell and molecular biologyendocrinologypediatric endocrinologypsychoneuroendocrinologybiological functionchild nutritionphysiology

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John Ngai

Professor Emeritus

University of California, Berkeley

Affiliations

College of Letters & Science

Biological Sciences

Molecular and Cell Biology

John Ngai is currently serving as a Biological Sciences Professor Emeritus at University of California, Berkeley.

Honors

Create free account to unlock more features

Experiences

Create free account to unlock more features

Education

Create free account to unlock more features

John Ngai

University of California, Berkeley

Professor Emeritus

You can click a keyword to filter the displayed items

Video Presentations

Notable Scholarly Works

Notable Federal Grants

Collaborators

Brain @ 10: A Decade of Innovation. Neuron (2024)

John Ngai

Improving Replicability in Single-Cell Rna-Seq Cell Type Discovery With Dune. BMC Bioinformatics (2024)

Hector Roux de BézieuxKelly StreetStephan FischerKoen Van den BergeRebecca ChanceDavide RissoJesse GillisJohn NgaiElizabeth PurdomSandrine Dudoit

single-cell analysisbioinformaticsrna biologycomputational biologytranscriptomics technologycell biology

Neocortical Long-Range Inhibition Promotes Cortical Synchrony and Sleep. bioRxiv (Cold Spring Harbor Laboratory) (2024)

cortical synchronyneocortical long-range inhibitionneurosciencesystems neurosciencecognitive neurosciencesleep

A Latent Activated Olfactory Stem Cell State Revealed by Single-Cell Transcriptomic and Epigenomic Profiling. bioRxiv (Cold Spring Harbor Laboratory) (2023)

Koen Van den BergeDana BakalarHsin-Jung ChouDivya KundaDavide RissoKelly StreetElizabeth PurdomSandrine DudoitJohn NgaiWhitney E Heavner

Normalization Benchmark of Atac-Seq Datasets Shows the Importance of Accounting for Gc-Content Effects. Cell Reports Methods (2022)

Koen Van den BergeHsin-Jung ChouHector Roux de BézieuxKelly StreetDavide RissoJohn NgaiSandrine Dudoit

bioinformaticsstatistical methodologynormalization benchmarkatac-seq datasetsgc-content effectsdata sciencecell researchimmunologydata normalizationcell biologyanalytics

Advancing Scientific Excellence Through Inclusivity in the Nih Brain Initiative. Neuron (2021)

Ryan R. RichardsonDevon C. CrawfordJohn NgaiAndrea C. Beckel-Mitchener

scientific excellencescientific communicationneurosciencenih brain initiative

A Multimodal Cell Census and Atlas of the Mammalian Primary Motor Cortex. Nature (2021)

geneticsgenomicsneuroimagingmammalian biologyneuroscienceneuroanatomysystems neurosciencemultimodal cell censuscell biologycognitive neurosciencemicroarray data analysis

A Transcriptomic and Epigenomic Cell Atlas of the Mouse Primary Motor Cortex. Nature (2021)

cellular neurobiologymammalian biologyneurosciencemolecular neurobiologyneuroanatomysystems biologymolecular neurosciencesystems neuroscienceepigenomicscognitive neurosciencemotor controlphysiology

Generation of a Dat-P2A-Flpo Mouse Line for Intersectional Genetic Targeting of Dopamine Neuron Subpopulations. Cell Reports (2021)

Daniel J. KramerErin E. AisenbergPolina KosilloDrew FriedmannDavid A. StaffordAngus Yiu-Fai LeeLiqun LuoDirk HockemeyerJohn NgaiHelen S. Bateup

geneticsdopamine neuron subpopulationsneurogeneticsneuroscienceintersectional genetic targetingcell biologydopamine

The Cellular Basis of Distinct Thirst Modalities. Yearbook of pediatric endocrinology (2021)

Allan-Hermann PoolTongtong WangDavid A StaffordRebecca K ChanceSangjun LeeJohn NgaiYuki Oka

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