Faculty

Institution

Unit

Venue

Adam C. Siepel

Adjunct Associate Professor

Stony Brook University

Affiliations

College of Engineering and Applied Sciences

Computer Science

Adam C. Siepel is currently serving as a College Of Engineering And Applied Sciences Adjunct Associate Professor at Stony Brook University.

Honors

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Experiences

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Education

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Adam C. Siepel

Stony Brook University

Adjunct Associate Professor

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genetics evolutionary biology genomics genome biology molecular biology population genetics gene expression bioinformatics molecular evolution transcription (biology) molecular cell biology evolutionary genetics phylogenetics human genetics rna biology population genomics gene regulation cell biology molecular ecology mammalian biology transcription regulation nucleic acids computational genomics genome analysis comparative genomics natural selection human genome evolutionary anthropology avian biology plant science gene evolution animal genetics sequence analysis evolutionary applications forensic genetics insect molecular biology genetic admixture sequence alignment transcriptomics technology oncogenes adaptation ornithology human origins rna processing microbial genetics plant genetics gene regulatory networks plant genomics nascent rna positive selection point mutations ancestral recombination graph selective sweeps mammalogy oral health primate systematics domestication evolutionary microbiology oral microbiology breast oncology endocrine-related cancers gene characterization gene function speciation non-coding rna plant biology sharp bottleneck domestication bottleneck genome-wide inference ancestral recombination graphs fitness consequences demographic history mammalian phylogenies nonneutral substitution rates ancestral primate genomes abundant primate species genetic programming biostatistics probabilistic graphical models theoretical biology biological data

Notable Scholarly Works

Notable Federal Grants

Collaborators

Abstract A079: Loss of Bptf Restores Estrogen-Regulated Programs and Suppress Metastatic Development of Mammary Tumors. Cancer Research (2024)

Chen ChenMichael F. CicconeMarygrace c. TrousdellDeeptiman ChatterjeeYixin ZhaoSteven M. LewisDhivya AnandanJohn E. WilkinsonWilliam C. K. PomerantzAdam SiepelCamila O. dos Santos

gynecologic oncologycancer careendocrine oncologycancer managementendocrinologymolecular cancercancer biologyhealth sciencescancer researchtumor suppressorscancer treatmentmammary tumorstumor biologypharmacologyradiation oncologyclinical researchoncologysuppress metastatic developmentmedicinal researchcancer cells

Clonal Lineage Tracing With Somatic Delivery of Recordable Barcodes Reveals Migration Histories of Metastatic Prostate Cancer. Cancer Discovery (2024)

Ryan N. SerioArmin SchebenBilly LuDomenic V. GargiuloLucrezia PatrunoCaroline L. BuckholtzRyan J. ChaffeeMegan C. JibilianSteven G. PersaudStephen J. StaklinskiRebecca HassettLise M. BraultDaniele RamazzottiChristopher E. BarbieriAdam C. SiepelDawid G. Nowak

cancer geneticsprostate cancergenome biologycancer carecancer genomicscancer biologyhealth sciencesmetastatic prostate cancerbioinformaticscancer researchurologysomatic deliverydna barcodinggenomicsclonal lineagegeneticscancer discoverygenitourinary cancersoncology

Single-Cell Transcription Mapping of Murine and Human Mammary Organoids Responses to Female Hormones. Journal of Mammary Gland Biology and Neoplasia (2024)

Jenelys Ruiz OrtizSteven M. LewisMichael CicconeDeeptiman ChatterjeeSamantha HenryAdam SiepelCamila O. dos Santos

dermatologycancer geneticsendocrinologysingle-cell analysissingle-cell transcription mappingmammalian biologymammary glandbreast cancermedicinal researchrna biologycancer biologytumor biologyhealth sciencescell biology

Teosinte Pollen Drive Guides Maize Diversification and Domestication by Rnai. Nature (2024)

Benjamin BerubeEvan ErnstJonathan CahnBenjamin RocheCristiane de Santis AlvesJason LynnArmin SchebenDaniel GrimanelliAdam SiepelJeffrey Ross-IbarraJerry KermicleRobert A. Martienssen

genetic recombinationagricultural biotechnologycross-fertilizationplant diversityplant biotechnologyplant geneticsgeneticsbiologyagronomyintegrative plant biologyevolutionary ecologyplant breedingecology and evolutionary biologyplant pathologyplant sciencebotanyplant genomicsevolutionary biology

Dna-Sequence and Epigenomic Determinants of Local Rates of Transcription Elongation. bioRxiv (Cold Spring Harbor Laboratory) (2023)

Lingjie LiuYixin ZhaoAdam Siepel

genomicsgenome biologygene expressionepigenomicstranscription elongationgeneticsdna sequencingnucleic acidsepigenomic determinantsmolecular geneticsmolecular biologylocal ratesepigeneticsprotein sciencebiochemistrybioinformatics

Domain-Adaptive Neural Networks Improve Supervised Machine Learning Based on Simulated Population Genetic Data. PLoS Genetics (2023)

Ziyi MoAdam Siepel

machine learninggeneticsdomain-adaptive neural networks

Identification of Constrained Sequence Elements Across 239 Primate Genomes. Nature (2023)

Lukas F. K. KudernaJacob C. UlirschSabrina RashidMohamed AmeenLaksshman SundaramGlenn HickeyAnthony J. CoxHong GaoArvind KumarFrancois AguetMatthew J. ChristmasHiram ClawsonMaximilian HaeusslerMareike C. JaniakMartin KuhlwilmJoseph D. OrkinThomas BataillonShivakumara ManuAlejandro ValenzuelaJuraj BergmanMarjolaine RouselleFelipe Ennes SilvaLidia AguedaJulie BlancMarta GutDorien de VriesIan GoodheadR. Alan HarrisMuthuswamy RaveendranAxel JensenIdriss S. ChumaJulie E. HorvathChristina HvilsomDavid JuanPeter FrandsenJoshua G. SchraiberFabiano R. de MeloFabrício BertuolHazel ByrneIracilda SampaioIzeni FariasJoão ValsecchiMalu MessiasMaria N. F. da SilvaMihir TrivediRogerio RossiTomas HrbekNicole AndriaholinirinaClément J. RabarivolaAlphonse ZaramodyClifford J. JollyJane Phillips-ConroyGregory WilkersonChristian AbeeJoe H. SimmonsEduardo Fernandez-DuqueSree KanthaswamyFekadu ShiferawDongdong WuLong ZhouYong ShaoGuojie ZhangJulius D. KeyyuSascha KnaufMinh D. LeEsther LizanoStefan MerkerArcadi NavarroTilo NadlerChiea Chuen KhorJessica LeePatrick TanWeng Khong LimAndrew C. KitchenerDietmar ZinnerIvo GutAmanda D. MelinKaterina GuschanskiMikkel Heide SchierupRobin M. D. BeckIoannis KarakikesKevin C. WangGovindhaswamy UmapathyChristian RoosJean P. BoubliAdam SiepelAnshul KundajeBenedict PatenKerstin Lindblad-TohJeffrey RogersTomas Marques BonetKyle Kai-How Farh

genomicsgenome biologyprimatologygeneticsprimate genomesconstrained sequence elements

Teosinte Pollen Drive Guides Maize Diversification and Domestication by Rnai. bioRxiv (Cold Spring Harbor Laboratory) (2023)

Benjamin BerubeEvan ErnstJonathan CahnBenjamin RocheCristiane de Santis AlvesJason LynnArmin SchebenAdam SiepelJeffrey Ross-IbarraJerry KermicleRob Martienssen

plant diversityplant geneticsgeneticsbiologycrop improvemententomologypalynologyplant sciencebotanyevolutionary biologycrop science

Long-Read Sequencing Reveals Rapid Evolution of Immunity- and Cancer-Related Genes in Bats. Genome Biology and Evolution (2023)

Armin SchebenOlivia Mendivil RamosMelissa KramerSara GoodwinSara OppenheimDaniel J BeckerMichael C SchatzNancy B SimmonsAdam SiepelW Richard McCombie

immunologygenomicsgenome biologylong-read sequencingavian biologygeneticsmolecular evolutioncancer-related genesgene evolutionevolutionary biology

Model-Based Characterization of the Equilibrium Dynamics of Transcription Initiation and Promoter-Proximal Pausing in Human Cells. Nucleic Acids Research (2023)

Yixin ZhaoLingjie LiuRebecca HassettAdam Siepel

epigenomicsgeneticspromoter-proximal pausingmolecular biologytranscription initiationequilibrium dynamicsepigeneticsmodel-based characterizationcell biology

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Adam C. Siepel

Adjunct Associate Professor

Stony Brook University

Affiliations

College of Engineering and Applied Sciences

Computer Science

Adam C. Siepel is currently serving as a College Of Engineering And Applied Sciences Adjunct Associate Professor at Stony Brook University.

Honors

Create free account to unlock more features

Experiences

Create free account to unlock more features

Education

Create free account to unlock more features

Adam C. Siepel

Stony Brook University

Adjunct Associate Professor

You can click a keyword to filter the displayed items

Notable Scholarly Works

Notable Federal Grants

Collaborators

Abstract A079: Loss of Bptf Restores Estrogen-Regulated Programs and Suppress Metastatic Development of Mammary Tumors. Cancer Research (2024)

Chen ChenMichael F. CicconeMarygrace c. TrousdellDeeptiman ChatterjeeYixin ZhaoSteven M. LewisDhivya AnandanJohn E. WilkinsonWilliam C. K. PomerantzAdam SiepelCamila O. dos Santos

Clonal Lineage Tracing With Somatic Delivery of Recordable Barcodes Reveals Migration Histories of Metastatic Prostate Cancer. Cancer Discovery (2024)

Single-Cell Transcription Mapping of Murine and Human Mammary Organoids Responses to Female Hormones. Journal of Mammary Gland Biology and Neoplasia (2024)

Jenelys Ruiz OrtizSteven M. LewisMichael CicconeDeeptiman ChatterjeeSamantha HenryAdam SiepelCamila O. dos Santos

Teosinte Pollen Drive Guides Maize Diversification and Domestication by Rnai. Nature (2024)

Benjamin BerubeEvan ErnstJonathan CahnBenjamin RocheCristiane de Santis AlvesJason LynnArmin SchebenDaniel GrimanelliAdam SiepelJeffrey Ross-IbarraJerry KermicleRobert A. Martienssen

Dna-Sequence and Epigenomic Determinants of Local Rates of Transcription Elongation. bioRxiv (Cold Spring Harbor Laboratory) (2023)

Lingjie LiuYixin ZhaoAdam Siepel

Domain-Adaptive Neural Networks Improve Supervised Machine Learning Based on Simulated Population Genetic Data. PLoS Genetics (2023)

Ziyi MoAdam Siepel

machine learninggeneticsdomain-adaptive neural networks

Identification of Constrained Sequence Elements Across 239 Primate Genomes. Nature (2023)

genomicsgenome biologyprimatologygeneticsprimate genomesconstrained sequence elements

Teosinte Pollen Drive Guides Maize Diversification and Domestication by Rnai. bioRxiv (Cold Spring Harbor Laboratory) (2023)

Benjamin BerubeEvan ErnstJonathan CahnBenjamin RocheCristiane de Santis AlvesJason LynnArmin SchebenAdam SiepelJeffrey Ross-IbarraJerry KermicleRob Martienssen

plant diversityplant geneticsgeneticsbiologycrop improvemententomologypalynologyplant sciencebotanyevolutionary biologycrop science

Long-Read Sequencing Reveals Rapid Evolution of Immunity- and Cancer-Related Genes in Bats. Genome Biology and Evolution (2023)

Armin SchebenOlivia Mendivil RamosMelissa KramerSara GoodwinSara OppenheimDaniel J BeckerMichael C SchatzNancy B SimmonsAdam SiepelW Richard McCombie

immunologygenomicsgenome biologylong-read sequencingavian biologygeneticsmolecular evolutioncancer-related genesgene evolutionevolutionary biology

Model-Based Characterization of the Equilibrium Dynamics of Transcription Initiation and Promoter-Proximal Pausing in Human Cells. Nucleic Acids Research (2023)

Yixin ZhaoLingjie LiuRebecca HassettAdam Siepel

epigenomicsgeneticspromoter-proximal pausingmolecular biologytranscription initiationequilibrium dynamicsepigeneticsmodel-based characterizationcell biology

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5
12
10 / page

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protein bioinformatics

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