Scientist, Bioinformatics/Computational Biology

* **** **** ***** *****, PhD

Redwood City, CA ***65 949-***-**** https://www.linkedin.com/in/tolgaturan

https://github.com/tolgaturan-github adhs6g@r.postjobfree.com

BIOINFORMATICS and GENOMICS SCIENTIST

Talented and bright -Omics Scientist qualified in Molecular Biosciences and Informatics. Extensive experience in

molecular biology and bioinformatics. Cultivated reader/writer on cancer literature. Special interest in using –Omics Data to predict disesase/treatment outcome. Demonstrated capability in processing and analysis of large scale -ome data.

Analysis of RNAseq, Single-Cell and Spatial Tx datasets

Public Data Mining: GEO and GDC

Proficient in Statistics/Programming with R/Python

Linux Scripting: awk/sed

Integrated analysis of multiple –omics data types

Exome and ctDNA analysis, somatic variant calling

10X, Visium, Smart-seq2, Seurat, R Shiny

High-performance compute cluster/docker

PROFESSIONAL EXPERIENCE

Computational Biologist at ABBVIE BioTherapeutics, Redwood City, CA 2016 - Present

Supporting Oncology Early Discovery research groups to understand and manipulate immune response to cancer using public (TCGA,GTEX, GEO) and internal databases Processing, QC and Analysis of High-Dimensional Biological Data. Making Big NGS Datasets “interpretable” to Bench Scientists. Analysis of single-cell and spatial transcriptomics datasets to understand tumor microenvironment. Prognostic and Predictive Biomarkers of Immunotherapy Response/Toxicity. Data-driven Patient stratification/indication selection.

Bioinformatics Scientist at MEDIVATION San Francisco, CA 2016 - 2016

Developed pipelines for NGS data analysis. Evaluated and tested R and Python packages to detect Copy Number Variation (CNV) calls from WGS and WES data. Implemented R scripts that compare CNV calls with population level gold standards and that assess agreement among packages and data types.

Curation Scientist at ILLUMINA (NextBio) Santa Clara, CA 2013 - 2016

As part of a fast-paced data analysis environment, have been accountable for curation of large-scale genomic data. Being a key member of the curation team, delivered data-mining efforts for RNA-seq and microarray gene expression as well as CNV and GWAS data types.

Assistant Specialist at UNIVERSITY of CALIFORNIA, Irvine, CA 2008 - 2011

Researched Prostate Cancer fusion oncogenes using bench and bioinformatics sides of microarray profiling. Created detailed signatures of Tmprss2-ETS oncogenes to explain the biology and for use as biomarkers and classifiers.

EDUCATION

PhD in Molecular Biology and Biochemistry at UNIVERSITY of CALIFORNIA, Irvine, CA 2002-2007

Discovered a DNA Methylation (Epigenetic) Biomarker that correlates with Cervical Cancer Progression.

Created high-throughput qPCR methods to Detect Epigenetic Cancer Biomarkers.

MSc in Molecular Microbiology at Bilkent University, TURKEY, Ankara 2000-2002

Generated a Genomic library for respiratory pathogen Moraxella Catarrhalis, Designed and performed experiments to identify an “Adhesin” protein from the bacterial surface

BS in Molecular Biology and Genetics at Bilkent University, TURKEY, Ankara 1996-2000

Scored in top 200 in the University Entrance Examination of Turkey among ~1 million students.

1 Knot Lane TOLGA TURAN, PhD

Redwood City, CA 94065 https://www.linkedin.com/in/tolgaturan 949-***-**** http://mobiosci.blogspot.com

PUBLICATIONS

Turan T, Kongpachith S, Halliwill K, Roelands J, Hendrickx W, Marincola F, Hudson T, Jacob H, Bedognetti D, Samayoa J, and Ceccarelli M. A balance score between immune stimulatory and suppressive microenvironments identifies mediators of anti-tumor immunity and predicts pan-cancer survival. Br J Cancer. Accepted manuscript in press.

Roelands J, Hendrickx W, Zoppoli G, Mall R, Saad M, Halliwill K, Curigliano G, Rinchai D, Decock J, Delogu LG, Turan T, Samayoa J, Chouchane L, Ballestrero A, Wang E, Finetti P, Bertucci F, Miller LD, Galon J, Marincola FM, Kuppen PJK, Ceccarelli M, Bedognetti D. Oncogenic states dictate the prognostic and predictive connotations of intratumoral immune response. J Immunother Cancer. 2020 Apr;8(1)

Turan T, Kannan D, Patel M, Matthew Barnes J, Tanlimco SG, Lu R, Halliwill K, Kongpachith S, Kline DE, Hendrickx W, Cesano A, Butterfield LH, Kaufman HL, Hudson TJ, Bedognetti D, Marincola F, Samayoa J.Immune oncology, immune responsiveness and the theory of everything. J Immunother Cancer. 2018 Jun 5;6(1):50

Rongze Lu, Tolga Turan, Josue Samayoa, Francesco M. Marincola. Cancer immune resistance: can theories converge?

Emerging Topics in Life Sciences Dec 12, 2017, 1 (5) 411-419

Jia Z, Wang Y, Sawyers A, Yao H, Rahmatpanah F, Xia XQ, Xu Q, Pio R, Turan T, Koziol JA, Goodison S, Carpenter P, Wang-Rodriguez J, Simoneau A, Meyskens F, Sutton M, Lernhardt W, Beach T, Monforte J, McClelland M, Mercola D. Diagnosis of Prostate Cancer Using Differentially Expressed Genes in Stroma. Cancer Research 2011 Apr 1;71(7):2476-2487

Wang Y, Mijares M, Gall MD, Turan T, Javier A, Bornemann DJ, Manage K, Warrior R. Drosophila variable nurse cells encodes arrest defective 1 (ARD1), the catalytic subunit of the major N-terminal acetyltransferase complex. Developmental Dynamics 2010 Nov; 239(11): 2813-27.

Nawarathna D, Turan T, Wickramasinghe HK. Selective probing of mRNA expression levels within a living cell. Appl Phys Lett. 2009 Aug 24;95(8):83117

Turan T, Kalantari M, Cuschieri K, Cubie HA, Skomedal H, Bernard HU. High-throughput detection of human papillomavirus-18 L1 gene methylation, a candidate biomarker for the progression of cervical neoplasia. Virology. 2007 Apr 25;361(1):185-93.

Turan T, Kalantari M, Calleja-Macias IE, Cubie HA, Cuschieri K, Villa LL, Skomedal H, Barrera-Saldana HA, Bernard HU. Methylation of the human papillomavirus-18 L1 gene: a biomarker of neoplastic progression? Virology 2006 May 25;349(1):175-83.

Akgul G, Erturk A, Turkoz M, Turan T, Ichinose A, Nagatake T, Ahmed K. Role of Lipooligosaccharide in the Attachment of Moraxella catarrhalis to Human Pharyngeal Epithelial Cells.” Microbiol Immunol. 2005 ;49:931-5

Cakan G, Turkoz M, Turan T, Ahmed K, Nagatake T. S-carboxymethylcysteine inhibits the attachment of Streptococcus pneumoniae to human pharyngeal epithelial cells. Microb Pathog. 2003 Jun ;34 (6):261-5

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