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Author Details

Suleyman Cenk Sahinalp
National Cancer Institute, National Institutes of Health
2001
105
39
PMIDPaper TitleJournal TitlePublished Year
36657977An efficient genotyper and star-allele caller for pharmacogenomics.Genome Res2023
37316351Single-cell methylation sequencing data reveal succinct metastatic migration histories and tumor progression models.Genome Res2023
37469403Computational pharmacogenotype extraction from clinical next-generation sequencing.Front Oncol2023
37333132Melanoma clonal subline analysis uncovers heterogeneity-driven immunotherapy resistance mechanisms.bioRxiv2023
35134542CYP2C8, CYP2C9, and CYP2C19 Characterization Using Next-Generation Sequencing and Haplotype Analysis: A GeT-RM Collaborative Project.J Mol Diagn2022
35452844Analytical Validation of a Computational Method for Pharmacogenetic Genotyping from Clinical Whole Exome Sequencing.J Mol Diagn2022
36307411Strain level microbial detection and quantification with applications to single cell metagenomics.Nat Commun2022
36064595Big data in basic and translational cancer research.Nat Rev Cancer2022
36265467ImmunoTyper-SR: A computational approach for genotyping immunoglobulin heavy chain variable genes using short-read data.Cell Syst2022
35132409ImmunoTyper-SR: A Novel Computational Approach for Genotyping Immunoglobulin Heavy Chain Variable Genes using Short Read Data.bioRxiv2022
34297621Studying the History of Tumor Evolution from Single-Cell Sequencing Data by Exploring the Space of Binary Matrices.J Comput Biol2021
34859247Privacy-Preserving Genotype Imputation in a Trusted Execution Environment.Res Comput Mol Biol2021
34391887Proteogenomic Analysis Unveils the HLA Class I-Presented Immunopeptidome in Melanoma and EGFR-Mutant Lung Adenocarcinoma.Mol Cell Proteomics2021
34450045Privacy-preserving genotype imputation in a trusted execution environment.Cell Syst2021
32160033PyGTED: Python Application for Computing Graph Traversal Edit Distance.J Comput Biol2020
32058803Graph Traversal Edit Distance and Extensions.J Comput Biol2020
32657374Identification of conserved evolutionary trajectories in tumors.Bioinformatics2020
32896768Erratum: Genotyping and Copy Number Analysis of Immunoglobulin Heavy Chain Variable Genes Using Long Reads.iScience2020
32132732Sketching algorithms for genomic data analysis and querying in a secure enclave.Nat Methods2020
32483558Clonal Evolution and Heterogeneity of Osimertinib Acquired Resistance Mechanisms in EGFR Mutant Lung Cancer.Cell Rep Med2020
30561550lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data.Bioinformatics2019
31372179A multi-labeled tree dissimilarity measure for comparing "clonal trees" of tumor progression.Algorithms Mol Biol2019
30735634Widespread and Functional RNA Circularization in Localized Prostate Cancer.Cell2019
30889379The Proteogenomic Landscape of Curable Prostate Cancer.Cancer Cell2019
30963078Protecting Genomic Data Privacy with Probabilistic Modeling.Pac Symp Biocomput2019
29267878Computational identification of micro-structural variations and their proteogenomic consequences in cancer.Bioinformatics2018
29808028Analysis of the androgen receptor-regulated lncRNA landscape identifies a role for ARLNC1 in prostate cancer progression.Nat Genet2018
30011248Preface: Selected Articles from RECOMB 2017.J Comput Biol2018
28330676Stromal Gene Expression is Predictive for Metastatic Primary Prostate Cancer.Eur Urol2018
29617966MechRNA: prediction of lncRNA mechanisms from RNA-RNA and RNA-protein interactions.Bioinformatics2018
29422526Optimal compressed representation of high throughput sequence data via light assembly.Nat Commun2018
29700301Publisher Correction: Optimal compressed representation of high throughput sequence data via light assembly.Nat Commun2018
29483503Allelic decomposition and exact genotyping of highly polymorphic and structurally variant genes.Nat Commun2018
29757368The long noncoding RNA landscape of neuroendocrine prostate cancer and its clinical implications.Gigascience2018
27180064SRRM4 Drives Neuroendocrine Transdifferentiation of Prostate Adenocarcinoma Under Androgen Receptor Pathway Inhibition.Eur Urol2017
28985744Correction to: ReMixT: clone-specific genomic structure estimation in cancer.Genome Biol2017
28954787Mutational Analysis of Gene Fusions Predicts Novel MHC Class I-Restricted T-Cell Epitopes and Immune Signatures in a Subset of Prostate Cancer.Clin Cancer Res2017
28750660ReMixT: clone-specific genomic structure estimation in cancer.Genome Biol2017
28768687HIT'nDRIVE: patient-specific multidriver gene prioritization for precision oncology.Genome Res2017
28786365PRESAGE: PRivacy-preserving gEnetic testing via SoftwAre Guard Extension.BMC Med Genomics2017
28056180Clonality Inference from Single Tumor Samples Using Low-Coverage Sequence Data.J Comput Biol2017
28068672Genomic hallmarks of localized, non-indolent prostate cancer.Nature2017
28065902PRINCESS: Privacy-protecting Rare disease International Network Collaboration via Encryption through Software guard extensionS.Bioinformatics2017
27531099SiNVICT: ultra-sensitive detection of single nucleotide variants and indels in circulating tumour DNA.Bioinformatics2017
27453444Enabling Privacy-Preserving GWASs in Heterogeneous Human Populations.Cell Syst2016
27587673CoLoRMap: Correcting Long Reads by Mapping short reads.Bioinformatics2016
27666543The lncRNA landscape of breast cancer reveals a role for DSCAM-AS1 in breast cancer progression.Nat Commun2016
27776113Comparison of high-throughput sequencing data compression tools.Nat Methods2016
25568283Clonality inference in multiple tumor samples using phylogeny.Bioinformatics2015
26382624Robustness of Massively Parallel Sequencing Platforms.PLoS One2015
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Collaborators

Colin C Collins
University of British Columbia
Co-authored papers 23
Faraz Hach
University of British Columbia
Co-authored papers 20
Can Alkan
Bilkent University
Co-authored papers 20
Evan E Eichler
University of Washington
Co-authored papers 18
Fereydoun Hormozdiari
University of California davis
Co-authored papers 18
Ibrahim Numanagi??
University of Victoria
Co-authored papers 13
Andrew McPherson
Memorial Sloan Kettering Cancer Center
Co-authored papers 12
Iman Hajirasouliha
Institute for Computational Biomedicine
Co-authored papers 11
Stanislav V Volik
University of British Columbia
Co-authored papers 9
Anna Lapuk
Contextual Genomics Inc.
Co-authored papers 7
Alexander W Wyatt
University of British Columbia
Co-authored papers 7
Martin E Gleave
University of British Columbia
Co-authored papers 7
Fan Mo
Institute of Stem Cell and Regeneration, Chinese Academy of Sciences
Co-authored papers 6
Nilgun Donmez
University of British Columbia, Simon Fraser University
Co-authored papers 6
Kaiyuan Zhu
Zhejiang Institute of Landscape Plants and Flowers
Co-authored papers 6
Sohrab P Shah
Memorial Sloan Kettering Cancer Center
Co-authored papers 6
Paul C Boutros
University of California los angeles
Co-authored papers 6
Robert G Bristow
University of Toronto
Co-authored papers 6
Yuzhuo Wang
University of British Columbia
Co-authored papers 5
Arul M Chinnaiyan
University of Michigan Medical School.
Co-authored papers 5
Farhad Hormozdiari
Co-authored papers 5
Chunxiao Wu
Shandong Provincial Hospital, Cheeloo College of Medicine, Shandong University
Co-authored papers 5
Victoria M Pratt
Indiana University School of Medicine
Co-authored papers 4
Marco A Marra
University of British Columbia
Co-authored papers 4
Bernard T??tu
Centre de Recherche du CHU de Quebec-Universite Laval (axe Oncologie)
Co-authored papers 4
Natalie S Fox
University of California los angeles
Co-authored papers 4
Robert Shukin
University of British Columbia
Co-authored papers 4
Sonal Brahmbhatt
University of British Columbia
Co-authored papers 4
Michael Fraser
Princess Margaret Cancer Centre, University Health Network
Co-authored papers 4
Yu-Jia Shiah
Ontario Institute for Cancer Research
Co-authored papers 4
Release 1.2