Faculty

Institution

Unit

Venue

Ye Zheng

Assistant Professor

The University of Texas MD Anderson Cancer Center

Affiliations

Metabolomics Core Facility

Department Of Bioinformatics And Computational Biology

Ye Zheng is currently serving as a Bioinformatics And Computational Biology Assistant Professor at The University of Texas Md Anderson Cancer Center.

Honors

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Experiences

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Education

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Ye Zheng

The University of Texas MD Anderson Cancer Center

Assistant Professor

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molecular biology genomics genetics bioinformatics genome biology systems biology cell biology computational biology single-cell analysis oncology cellular differentiation human genetics gene expression functional genomics medicinal research cytogenetics cancer biology epigenomics computational genomics tumor progression generative modeling mhi-c advances analysis multi-mapping reads molecular cancer surgical oncology biotechnology advance enzyme inhibition brain tumor research pharmacotherapy cellular therapy clinical investigation developmental cell developmental science oncogenes scientific computing information fusion nature method cancer genomics tumor targeting anti-cancer agents tumor suppressors drug targeting cancer treatment rna biology gene regulation trace metals multi-omics studies cancer genetics data augmentation omics datasets data-level parallelism high-performance data analytics high performance computing translational bioinformatics transcriptomics technology omics integration protein bioinformatics biomedical data integration sequence analysis exploratory data analysis transcription regulation hla typing gene recognition gene characterization chromatin modifications tag analysis hdac inhibition optimal therapeutic targeting genome function hi-c studies autism spectrum disorder prior-enhanced read mapping segmental duplication repetitive regions robust normalization single-cell protein expression

Notable Scholarly Works

Notable Federal Grants

Collaborators

Rna Polymerase II at Histone Genes Predicts Outcome in Human Cancer. Science (2025)

geneticscancer researchchromatincell biologyoncogenesmolecular biologycancer genetics

Histone Marks Identify Novel Transcription Factors That Parse Car-T Subset-Of-Origin, Clinical Potential and Expansion. Nature Communications (2024)

S FiorenzaY ZhengJ PurusheT J BockJ SarthyD H JanssensA S SheihE L KimbleD KirchmeierT D PhiJ GauthierA V HirayamaS R RiddellQ WuR GottardoD G MaloneyJ Y H YangS HenikoffC J Turtle

molecular diagnosticsgeneticscar-t subset-of-origingene expressionbioinformaticshistone markstranscription (biology)gene characterizationgene recognitiontranscription factorssystems biologygenomicsepigenomicsnovel transcription factorstranscription regulationclinical potentialmolecular biologyhla typing

ADTNORM: Robust Integration of Single-Cell Protein Measurement Across Cite-Seq Datasets. bioRxiv (Cold Spring Harbor Laboratory) (2022)

Ye ZhengDaniel P. CaronJu Yeong KimSeong-Hwan JunYuan TianMair FlorianKenneth D. StuartPeter A. SimsRaphael Gottardo

cite-seq datasetsbioinformaticsprotein sciencesingle-cell protein expressiontranslational bioinformaticsbiomedical informaticsdata sciencesystems biologyproteomicstranscriptomics technologyomics integrationgenomicscomputational biologygenome biologyprotein bioinformaticsdata miningrobust normalizationmolecular biologybiomedical data integration

SCGAD: Single-Cell Gene Associating Domain Scores for Exploratory Analysis of Schi-C Data. Bioinformatics (2022)

Siqi ShenYe ZhengSündüz Keleş

exploratory analysisdomain scoresbioinformaticssingle-cell analysiscell biologyexploratory data analysiscomputational genomicssequence analysisgenomicsimmunologycomputational biologysingle-cell genemolecular biologyschi-c data

Normalization and De-Noising of Single-Cell Hi-C Data With Bandnorm and 3dvi. bioRxiv (Cold Spring Harbor Laboratory) (2021)

biophysicsbiomedical imagingsingle-cell analysiscomputational imagingbiological imagingbiomedical analysis

Single-Cell Cut Tag Analysis of Chromatin Modifications in Differentiation and Tumor Progression. Nature Biotechnology (2021)

Steven J. WuScott N. FurlanAnca B. MihalasHatice S. Kaya-OkurAbdullah H. FerozeSamuel N. EmersonYe ZhengKalee CarsonPatrick J. CiminoC. Dirk KeeneJay F. SarthyRaphael GottardoKami AhmadSteven HenikoffAnoop P. Patel

cancer biologypharmacologytumor biologytag analysisbiotechnology advanceoncologycytogeneticscancer genomicsmolecular cancersingle-cell analysistumor progressiongenomicsimmunologybiotechnologygenome biologymedicinal researchsurgical oncologycellular differentiationdermatologychromatin modificationsepigenomics

Transcriptome-Wide Transmission Disequilibrium Analysis Identifies Novel Risk Genes for Autism Spectrum Disorder. PLoS Genetics (2021)

Kunling HuangYuchang WuJunha ShinYe ZhengAlireza Fotuhi SiahpiraniYupei LinZheng NiJiawen ChenJing YouSunduz KelesDaifeng WangSushmita RoyQiongshi Lu

geneticshuman geneticsgenomicsmolecular biologyautism spectrum disorder

Discovering How Heme Controls Genome Function Through Heme-Omics. Cell Reports (2020)

Ruiqi LiaoYe ZhengXin LiuYuannyu ZhangGretchen SeimNobuyuki TanimuraGary M. WilsonPeiman HemattiJoshua J. CoonJing FanJian XuSunduz KelesEmery H. Bresnick

geneticsgene regulationcell biologyfunctional genomicssystems biologygenomicsrna biologygenome biologygene expressiongenome function

Freehi-C Spike-in Simulations for Benchmarking Differential Chromatin Interaction Detection. Methods (2020)

Ye ZhengPeigen ZhouSündüz Keleş

biophysicscomputational biologyfreehi-c spike-in simulations

Optimal Therapeutic Targeting by Hdac Inhibition in Biopsy-Derived Treatment-NaïVe Diffuse Midline Glioma Models. Neuro-Oncology (2020)

Nicholas A VitanzaMatt C BieryCarrie MyersEric FergusonYe ZhengEmily J GirardJustyna M PrzystalGiulia ParkAlyssa NollFiona PakiamConrad A WinterShelli M MorrisJay SarthyBonnie L ColeSarah E S LearyCourtney CraneNicole A P LiebermanSabine MuellerJavad NazarianRaphael GottardoMi-Youn BrusniakAndrew J MhyreJames M Olson

medicinetumor suppressorspharmacologygliomascellular therapyoncologyoptimal therapeutic targetingcancer treatmentbrain tumor researchhdac inhibitionneurologyanti-cancer agentsneuropharmacologyneuro-oncologytumor targetingnanomedicinemedicinal researchdrug targetingenzyme inhibitionpharmacotherapy

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Ye Zheng

Assistant Professor

The University of Texas MD Anderson Cancer Center

Affiliations

Metabolomics Core Facility

Department Of Bioinformatics And Computational Biology

Ye Zheng is currently serving as a Bioinformatics And Computational Biology Assistant Professor at The University of Texas Md Anderson Cancer Center.

Honors

Create free account to unlock more features

Experiences

Create free account to unlock more features

Education

Create free account to unlock more features

Ye Zheng

The University of Texas MD Anderson Cancer Center

Assistant Professor

You can click a keyword to filter the displayed items

Notable Scholarly Works

Notable Federal Grants

Collaborators

Rna Polymerase II at Histone Genes Predicts Outcome in Human Cancer. Science (2025)

geneticscancer researchchromatincell biologyoncogenesmolecular biologycancer genetics

Histone Marks Identify Novel Transcription Factors That Parse Car-T Subset-Of-Origin, Clinical Potential and Expansion. Nature Communications (2024)

S FiorenzaY ZhengJ PurusheT J BockJ SarthyD H JanssensA S SheihE L KimbleD KirchmeierT D PhiJ GauthierA V HirayamaS R RiddellQ WuR GottardoD G MaloneyJ Y H YangS HenikoffC J Turtle

ADTNORM: Robust Integration of Single-Cell Protein Measurement Across Cite-Seq Datasets. bioRxiv (Cold Spring Harbor Laboratory) (2022)

Ye ZhengDaniel P. CaronJu Yeong KimSeong-Hwan JunYuan TianMair FlorianKenneth D. StuartPeter A. SimsRaphael Gottardo

SCGAD: Single-Cell Gene Associating Domain Scores for Exploratory Analysis of Schi-C Data. Bioinformatics (2022)

Siqi ShenYe ZhengSündüz Keleş

Normalization and De-Noising of Single-Cell Hi-C Data With Bandnorm and 3dvi. bioRxiv (Cold Spring Harbor Laboratory) (2021)

biophysicsbiomedical imagingsingle-cell analysiscomputational imagingbiological imagingbiomedical analysis

Single-Cell Cut Tag Analysis of Chromatin Modifications in Differentiation and Tumor Progression. Nature Biotechnology (2021)

Transcriptome-Wide Transmission Disequilibrium Analysis Identifies Novel Risk Genes for Autism Spectrum Disorder. PLoS Genetics (2021)

Kunling HuangYuchang WuJunha ShinYe ZhengAlireza Fotuhi SiahpiraniYupei LinZheng NiJiawen ChenJing YouSunduz KelesDaifeng WangSushmita RoyQiongshi Lu

geneticshuman geneticsgenomicsmolecular biologyautism spectrum disorder

Discovering How Heme Controls Genome Function Through Heme-Omics. Cell Reports (2020)

Ruiqi LiaoYe ZhengXin LiuYuannyu ZhangGretchen SeimNobuyuki TanimuraGary M. WilsonPeiman HemattiJoshua J. CoonJing FanJian XuSunduz KelesEmery H. Bresnick

geneticsgene regulationcell biologyfunctional genomicssystems biologygenomicsrna biologygenome biologygene expressiongenome function

Freehi-C Spike-in Simulations for Benchmarking Differential Chromatin Interaction Detection. Methods (2020)

Ye ZhengPeigen ZhouSündüz Keleş

biophysicscomputational biologyfreehi-c spike-in simulations

Optimal Therapeutic Targeting by Hdac Inhibition in Biopsy-Derived Treatment-NaïVe Diffuse Midline Glioma Models. Neuro-Oncology (2020)

1
2
10 / page