Faculty

Institution

Unit

Venue

Simon Kasif

Professor

Boston University

Affiliations

College of Arts & Sciences

Bioinformatics, Intercollegiate Program

Computer Science

College of Engineering

Biomedical Engineering

Electrical and Computer Engineering

Materials Science and Engineering

Simon Kasif is currently serving as a Bioinformatics, Intercollegiate Program Professor at Boston University.

Honors

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Experiences

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Education

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Simon Kasif

Boston University

Professor

You can click a keyword to filter the displayed items

bioinformatics genomics genetics molecular biology computer science machine learning data science artificial intelligence genome biology computational intelligence computational biology protein science data mining gene expression machine learning research cancer biology sequence analysis tumor biology knowledge discovery molecular physiology interactomics computational genomics constraint satisfaction plo biology medicinal research cancer genomics cancer genetics molecular cancer molecular metabolism automated reasoning liver physiology microarray data analysis decision trees genome analysis computational learning theory oblique decision trees computational molecular biology molecular cell biology cell research brain tumor research cellular therapy molecular microbiology transcriptomics technology tumor targeting rule induction protein function microbial genetics bioinformatics database matching technique supervised learning gene evolution decision tree learning structural bioinformatics reasoning system sequence modelling virus-host interactions expression data multiplex pcr parallel complexity gene expression profiling gene regulation translational bioinformatics angiogenesis cancer growth sequence alignment expression profiles large-scale mapping interpolated markov models microbial gene identification genomewide analysis bivalent domains tumor-propagating potential periodontal disease deep sequencing gene expression data gene expression motifs multidisciplinary ai intelligent computing informatics systems biology biomedical engineering ai healthcare biomedical informatics

Notable Scholarly Works

Notable Federal Grants

Collaborators

SPIDER: Constructing Cell-Type-Specific Protein-Protein Interaction Networks. Bioinformatics Advances (2024)

Yael KupershmidtSimon KasifRoded Sharan

biomolecular interactionsbioinformaticsprotein sciencesystems biologycomputational biologyprotein modelingprotein bioinformatics

Targeted in Silico Characterization of Fusion Transcripts in Tumor and Normal Tissues via Fusioninspector. Cell Reports Methods (2023)

Brian J. HaasAlexander DobinMahmoud GhandiAnne Van ArsdaleTimothy TickleJames T. RobinsonRiaz GillaniSimon KasifAviv Regev

cancer genomicstumor biologygeneticscellular therapycancer imagingcell biologysilico characterizationnormal tissuesbiomedical engineeringproteomicscell researchfusion transcriptstumor targetinggene expressiongene therapytranscriptomics technology

High-Throughput Mediation Analysis of Human Proteome and Metabolome Identifies Mediators of Post-Bariatric Surgical Diabetes Control. Nature Communications (2021)

Jonathan M. DreyfussYixing YuchiXuehong DongVissarion EfthymiouHui PanDonald C. SimonsonAshley VernonFlorencia HalperinPratik AryalAnish KonkarYinong SebastianBrandon W. HiggsJoseph GrimsbyCristina M. RondinoneSimon KasifBarbara B. KahnKathleen FosterRandy SeeleyAllison GoldfineVera DjordjilovićMary Elizabeth Patti

high-throughput mediation analysisproteome researchhuman proteomediabetesendocrinologydiabetes managementbiostatisticssystems biologyimmunologyproteomicsmembrane biologymetabolic regulationmetabolomicscell metabolismomics integrationdiabetes therapies

Analysis of Brain Region-Specific Co-Expression Networks Reveals Clustering of Established and Novel Genes Associated With Alzheimer Disease. Alzheimer s Research & Therapy (2020)

D LancourJ DupuisR MayeuxJL HainesMA Pericak-Vance...

pathway analysissystems neuroscienceclinical neurosciencealzheimer's diseasealzheimer diseasebrain sciencebrain organizationneuroscienceclusteringmolecular neurobiologycomputational neurosciencecognitive sciencenovel genescognitive neuroscienceneurology

Rate Estimation and Identification of Covid-19 Infections: Towards Rational Policy Making During Early and Late Stages of Epidemics. medRxiv (Cold Spring Harbor Laboratory) (2020)

Richard BeigelSimon Kasif

covid-19infectious diseasespublic healthrate estimationepidemiology

We Need to Keep a Reproducible Trace of Facts, Predictions, and Hypotheses From Gene to Function in the Era of Big Data. PLoS Biology (2020)

Simon KasifRichard J. Roberts

scientific datageneticsbioinformaticsplo biologybiostatisticsgenomicsbiologyreproducible researchbig dataknowledge discoveryreproducible trace

Membrane Metallo-Endopeptidase (Neprilysin) Regulates Inflammatory Response and Insulin Signaling in White Preadipocytes. Molecular Metabolism (2019)

Alfred K. RamirezSimon DankelWeikang CaiMasaji SakaguchiSimon KasifC. Ronald Kahn

insulin signalingmolecular metabolisminflammationendocrinologycell biologymembrane proteinsinflammatory responsebiochemistrypharmacologymembrane biologymembrane metallo-endopeptidasewhite preadipocytesmolecular physiology

Novel Mediation Analysis of Human Plasma Proteome and Metabolome Reveals Mediators of Improved Glycemia After Gastric Bypass Surgery. bioRxiv (Cold Spring Harbor Laboratory) (2019)

Jonathan M DreyfussYixing YuchiHui PanXuehong DongDonald C. SimonsonAshley VernonPratik AryalAnish KonkarYinong SebastianBrandon W HiggsJoseph GrimsbyCristina M. RondinoneSimon KasifBarbara B. KahnKathleen FosterAllison GoldfineMary-Elizabeth Patti

novel mediation analysiscell biologybiostatisticslipidsbiological functionmolecular nutritionliver physiologyclinical nutritionhuman plasma proteomeimproved glycemiamembrane biologyproteomicstranslational physiologycell metabolismvascular biologyphysiologygastric bypass surgerymedicinal researchendocrinologynutrient physiologymetabolomicsenergy metabolism

One for All and All for One: Improving Replication of Genetic Studies Through Network Diffusion. PLoS Genetics (2018)

D LancourA NajR MayeuxJL HainesMA Pericak-Vance...

genetic studiesgeneticsnetwork diffusionreplication

Faculty Opinions Recommendation of Bread Affects Clinical Parameters and Induces Gut Microbiome-Associated Personal Glycemic Responses.. Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature (2017)

Simon Kasif

microbiomepeer reviewfaculty opinions recommendation

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Simon Kasif

Professor

Boston University

Affiliations

College of Arts & Sciences

Bioinformatics, Intercollegiate Program

Computer Science

College of Engineering

Biomedical Engineering

Electrical and Computer Engineering

Materials Science and Engineering

Simon Kasif is currently serving as a Bioinformatics, Intercollegiate Program Professor at Boston 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

Simon Kasif

Boston University

Professor

You can click a keyword to filter the displayed items

Notable Scholarly Works

Notable Federal Grants

Collaborators

SPIDER: Constructing Cell-Type-Specific Protein-Protein Interaction Networks. Bioinformatics Advances (2024)

Yael KupershmidtSimon KasifRoded Sharan

biomolecular interactionsbioinformaticsprotein sciencesystems biologycomputational biologyprotein modelingprotein bioinformatics

Targeted in Silico Characterization of Fusion Transcripts in Tumor and Normal Tissues via Fusioninspector. Cell Reports Methods (2023)

Brian J. HaasAlexander DobinMahmoud GhandiAnne Van ArsdaleTimothy TickleJames T. RobinsonRiaz GillaniSimon KasifAviv Regev

High-Throughput Mediation Analysis of Human Proteome and Metabolome Identifies Mediators of Post-Bariatric Surgical Diabetes Control. Nature Communications (2021)

Analysis of Brain Region-Specific Co-Expression Networks Reveals Clustering of Established and Novel Genes Associated With Alzheimer Disease. Alzheimer s Research & Therapy (2020)

D LancourJ DupuisR MayeuxJL HainesMA Pericak-Vance...

Rate Estimation and Identification of Covid-19 Infections: Towards Rational Policy Making During Early and Late Stages of Epidemics. medRxiv (Cold Spring Harbor Laboratory) (2020)

Richard BeigelSimon Kasif

covid-19infectious diseasespublic healthrate estimationepidemiology

We Need to Keep a Reproducible Trace of Facts, Predictions, and Hypotheses From Gene to Function in the Era of Big Data. PLoS Biology (2020)

Simon KasifRichard J. Roberts

scientific datageneticsbioinformaticsplo biologybiostatisticsgenomicsbiologyreproducible researchbig dataknowledge discoveryreproducible trace

Membrane Metallo-Endopeptidase (Neprilysin) Regulates Inflammatory Response and Insulin Signaling in White Preadipocytes. Molecular Metabolism (2019)

Alfred K. RamirezSimon DankelWeikang CaiMasaji SakaguchiSimon KasifC. Ronald Kahn

Novel Mediation Analysis of Human Plasma Proteome and Metabolome Reveals Mediators of Improved Glycemia After Gastric Bypass Surgery. bioRxiv (Cold Spring Harbor Laboratory) (2019)

One for All and All for One: Improving Replication of Genetic Studies Through Network Diffusion. PLoS Genetics (2018)

D LancourA NajR MayeuxJL HainesMA Pericak-Vance...

genetic studiesgeneticsnetwork diffusionreplication

Simon Kasif

microbiomepeer reviewfaculty opinions recommendation

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