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Hire Dr. Murat T.

United States

USD 200 /hr

Seasoned data science & engineering professional with both academic and industrial/applied experience.

Profile Summary

I have a Ph.D. in Computer Science and a career dedicated to understanding and communicating the roles of disparate data sources in complex problems. I've worked on both the theory and applied sides of problems and enjoy building bridges that connect the two. My academic career was focused on life sciences data, beginning with research developing data analysis methods for the then-new world of DNA sequencing technologies. I broadened that work over a 10+ year span, exploring a wide range of genetic data, making use of machine learning to help identify patterns in our complex biology. Along the way I've assembled a strong publication record, both as a lead and contributing author. This deep dive into scientific data gave me a robust foundation for my transition into industry. I now have deep, hands-on experience with machine learning and statistical inference. I’ve developed methods & software that touch on both theory and applied (practical) implementations. I regularly use cloud computing and have expertise in going from prototype development to implementing production-ready data pipelines and analytics packages. Modern database design (data lake, columnar store, and auto-scaling), dashboards (e.g. R/Shiny), analysis tools (R & Python packages) are all part of my standard ML/AI toolkit. I’m particularly adept at communicating how such systems work at the level appropriate for the recipient; distilling information for everyone from junior contributors to executive decision-makers. Creating clear data visualizations and reports is standard practice for me, and I believe strongly in education through data.

Subject Matter Expertise

• ☆ Computational Biology
• ☆ Biostatistics
• ☆ Computer Science
• ☆ Parallel Computing
• ☆ Distributed Computing
• ☆ Software Engineering
• ☆ Information Technology
• ☆ Database Management
• ☆ Information Engineering
• ☆ Systems Integration
• ☆ Software Architecture
• ☆ Data Analysis
• ☆ Social Network Analysis
• ☆ Algorithm Design
• ☆ Predictive Modeling & Analytics
• ☆ Data Processing
• ☆ Data Exploration
• ☆ Cluster Analysis
• ☆ Data Visualization
• ☆ Big Data Analytics
• ☆ Data Management
• ☆ Data Manipulation
• ☆ Machine Learning
• ☆ Text Mining & Analytics
• ☆ Data Mining
• ☆ Data Cleaning
• ☆ Natural Language Processing
• ☆ Data Architecture
• ☆ Neural Networks
• ☆ Artificial Intelligence
• ☆ Deep Learning
• ☆ Business Analytics
• ☆ Statistics
• ☆ Statistical Theory
• ☆ Applied Statistics
• ☆ Meta-Analysis
• ☆ Regression Analysis
• ☆ Multivariate Analysis
• ☆ Nonlinear Regression
• ☆ Bayesian Statistics
• ☆ Correlation Analysis
• ☆ Statistical Computing
• ☆ Mathematical Statistics
• ☆ Health Data Analysis
• ☆ Trend Analysis
• ☆ Bioinformatics
• ☆ Gene & Protein Expression Analysis
• ☆ Systems Biology
• ☆ Knowledge Management
• ☆ Taxonomy/Classification
• ☆ Information Systems
• ☆ Information Retrieval
• ☆ Information & Knowledge Management
• ☆ Python
• ☆ Matlab
• ☆ SQL
• ☆ Java
• ☆ Tensorflow
• ☆ LaTex
• ☆ R
• ☆ Scikit-learn
• ☆ Hadoop
• ☆ Markup Languages
• ☆ Software Development
• ☆ Mobile Application Development
• ☆ Desktop Application Development
• ☆ Web Application Development
• ☆ Cloud Application Development
• ☆ DevOps
• ☆ UI/UX Design
• ☆ Hypothesis
• ☆ Peer Review
• ☆ Research Methodology
• ☆ Technical & Scientific Writing
• ☆ Manuscript & Journal Article Writing
• ☆ Experimental Protocols
• ☆ White Papers
• ☆ Case Studies
• ☆ Textbook Content Writing
• ☆ Science Communication
• ☆ Literature Review
• ☆ Systematic Literature Review
• ☆ Scientific Proofreading & Editing
• ☆ Proofreading & Editing
• ☆ Consumer Products
• ☆ Marketing Analytics
• ☆ Digital Marketing
• ☆ Business Intelligence

Services

• Writing
• Research
• Consulting
• Data & AI
• Product Development

Writing Technical Writing, General Proofreading & Editing

Research Scientific and Technical Research

Consulting Digital Strategy Consulting, Operations Consulting, Scientific and Technical Consulting

Data & AI Predictive Modeling, Statistical Analysis, Image Analysis, Algorithm Design-Non ML, Algorithm Design-ML, Data Visualization, Big Data Analytics, Text Mining & Analytics, Data Mining, Data Cleaning, Data Processing, Data Insights

Product Development Prototyping

Work Experience

Principal

AlgoInformatics

2022 - Present

Founding Partner

Risio

2020 - Present

VP Data Science

Craftsy

2014 - 2020

Research Fellow

University of Toronto

2010 - 2014

Research Fellow

Harvard University

2005 - 2012

Education

Ph.D. - Computer Science (Computer Science)

Case Western Reserve University

1999 - 2006

B.Sc. - Computer Engineering (Computer Engineering)

Case Western Reserve University

1995 - 1999

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

Corominas, Roser, Yang, Xinping, Lin, Guan Ning, Kang, Shuli, Shen, Yun, Ghamsari, Lila, Broly, Martin, Rodriguez, Maria, Tam, Stanley, Wanamaker, Shelly A, et al.(2023). Author Correction: Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism. nature communications. 14. p. 569.

Corominas, Roser, Yang, Xinping, Lin, Guan Ning, Kang, Shuli, Shen, Yun, Ghamsari, Lila, Broly, Martin, Rodriguez, Maria, Tam, Stanley, Wanamaker, Shelly A, et al.(2023). Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism (vol 11, 3650, 2014). NATURE COMMUNICATIONS. 14. (1). NATURE PORTFOLIO HEIDELBERGER PLATZ 3, BERLIN, 14197, GERMANY

Luck, Katja, Kim, Dae-Kyum, Lambourne, Luke, Spirohn, Kerstin, Begg, Bridget E, Bian, Wenting, Brignall, Ruth, Cafarelli, Tiziana, Campos-Laborie, Francisco J, Charloteaux, Benoit, et al.(2020). A reference map of the human binary protein interactome. Nature. 580. (7803). p. 402--408. Nature Publishing Group UK London

Luck, Katja, Kim, Dae-Kyum, Lambourne, Luke, Spirohn, Kerstin, Begg, Bridget E, Bian, Wenting, Brignall, Ruth, Cafarelli, Tiziana, Campos-Laborie, Francisco J, Charloteaux, Benoit, et al.(2019). A reference map of the human protein interactome. BioRxiv. p. 605451. Cold Spring Harbor Laboratory

Weile, Jochen, Sun, Song, Cote, Atina G, Knapp, Jennifer, Verby, Marta, Mellor, Joseph C, Wu, Yingzhou, Pons, Carles, Wong, Cassandra, van Lieshout, Natascha, et al.(2017). A framework for exhaustively mapping functional missense variants. Molecular systems biology. 13. (12). p. 957.

Weile, Jochen, Sun, Song, Cote, Atina G, Knapp, Jennifer, Verby, Marta, Mellor, Joseph, Wu, Yingzhou, Pons, Carles, Wong, Cassandra, Lieshout, Natascha van, et al.(2017). Expanding the atlas of functional missense variation for human genes. bioRxiv. p. 166595. Cold Spring Harbor Laboratory

Zhong, Quan, Pevzner, Samuel J, Hao, Tong, Wang, Yang, Mosca, Roberto, Menche, Jörg, Taipale, Mikko, Taşan, Murat, Fan, Changyu, Yang, Xinping, et al.(2016). An inter-species protein--protein interaction network across vast evolutionary distance. Molecular systems biology. 12. (4). p. 865.

Taşan, Murat, Musso, Gabriel, Hao, Tong, Vidal, Marc, MacRae, Calum A, Roth, Frederick P(2015). Selecting causal genes from genome-wide association studies via functionally coherent subnetworks. Nature methods. 12. (2). p. 154--159. Nature Publishing Group US New York

Rolland, Thomas, Taşan, Murat, Charloteaux, Benoit, Pevzner, Samuel J, Zhong, Quan, Sahni, Nidhi, Yi, Song, Lemmens, Irma, Fontanillo, Celia, Mosca, Roberto, et al.(2014). A proteome-scale map of the human interactome network. Cell. 159. (5). p. 1212--1226. Elsevier

Tasan, Murat, Cokol, Murat, Weinstein, Zohar B, Yilancioglu, Kaan, Doak, Allison, Cansever, Dilay, Mutlu, Beste, Li, Siyang, Rodriguez-Esteban, Raul, Akhmedov, Murodzhon, et al.(2014). Large-scale identification and analysis of suppressive drug interactions. Chemistry & biology. 21. (4). p. 541--551. Elsevier

Tasan, Murat, Musso, Gabriel, Mosimann, Christian, Beaver, John E, Plovie, Eva, Carr, Logan A, Chua, Hon Nian, Dunham, Julie, Zuberi, Khalid, Rodriguez, Harold, et al.(2014). Novel cardiovascular gene functions revealed via systematic phenotype prediction in zebrafish. Development. 141. (1). p. 224--235. Company of Biologists

Tasan, Murat, Deo, Rahul C, Musso, Gabriel, Tang, Paul, Poon, Annie, Yuan, Christiana, Felix, Janine F, Vasan, Ramachandran S, Beroukhim, Rameen, De Marco, Teresa, et al.(2014). Prioritizing causal disease genes using unbiased genomic features. Genome biology. 15. (12). p. 534. BioMed Central London

De Marco, Teresa, Deo, Rahul, Kwok, Pui-Yan, Deo, RC, Musso, G, Tasan, M, Tang, P, Poon, A, Yuan, C, Felix, JF, et al.(2014). Prioritizing causal disease genes using unbiased genomic features.

Corominas Castiñeira, Roser, Yang, Xinping, Lin, Guan Ning, Kang, Shuli, Shen, Yun, Ghamsari, Lila, Broly, Martin, Rodriguez, Maria, Tam, Stanley, Trigg, Shelly A, et al.(2014). Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism. Nature Communications, 2014, vol. 5, num. 3650. Nature Publishing Group

Corominas, Roser, Yang, Xinping, Lin, Guan Ning, Kang, Shuli, Shen, Yun, Ghamsari, Lila, Broly, Martin, Rodriguez, Maria, Tam, Stanley, Wanamaker, Shelly A, et al.(2014). Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism. Nature communications. 5. (1). p. 3650. Nature Publishing Group UK London

Taşan, Murat, Drabkin, Harold J, Beaver, John E, Chua, Hon Nian, Dunham, Julie, Tian, Weidong, Blake, Judith A, Roth, Frederick P(2012). A Resource of Quantitative Functional Annotation.

Taşan, Murat, Drabkin, Harold J, Beaver, John E, Chua, Hon Nian, Dunham, Julie, Tian, Weidong, Blake, Judith A, Roth, Frederick P(2012). A resource of quantitative functional annotation for homo sapiens genes. G3: Genes| Genomes| Genetics. 2. (2). p. 223--233. Oxford University Press

Rozenblatt-Rosen, Orit, Deo, Rahul C, Padi, Megha, Adelmant, Guillaume, Calderwood, Michael A, Rolland, Thomas, Grace, Miranda, Dricot, Amélie, Askenazi, Manor, Tavares, Maria, et al.(2012). Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Nature. 487. (7408). p. 491--495. Nature Publishing Group UK London

Tasan, Murat, Carvunis, Anne-Ruxandra, Charloteaux, Benôıt, Dreze, Matija, Galli, Mary, Pevzner, Samuel J, Braun, Pascal, Ecker, Joseph R, Hill, David E, Roth, Frederick P, et al.(2011). Evidence for network evolution in an arabidopsis interactome map. Science. 333. (6042). American Association for the Advancement of Science, Washington, United~…

Tasan, Murat, Cenik, Can, Chua, Hon Nian, Zhang, Hui, Tarnawsky, Stefan P, Akef, Abdalla, Derti, Adnan, Moore, Melissa J, Palazzo, Alexander F, Roth, Frederick P(2011). Genome analysis reveals interplay between 5′ UTR introns and nuclear mRNA export for secretory and mitochondrial genes. PLoS genetics. 7. (4). p. e1001366. Public Library of Science

Tasan, Murat, Mukhtar, M Shahid, Carvunis, Anne-Ruxandra, Dreze, Matija, Epple, Petra, Steinbrenner, Jens, Moore, Jonathan, Galli, Mary, Hao, Tong, Nishimura, Marc T, et al.(2011). Independently evolved virulence effectors converge onto hubs in a plant immune system network. science. 333. (6042). p. 596--601. American Association for the Advancement of Science

Tasan, Murat, Cokol, Murat, Chua, Hon Nian, Mutlu, Beste, Weinstein, Zohar B, Suzuki, Yo, Nergiz, Mehmet E, Costanzo, Michael, Baryshnikova, Anastasia, Giaever, Guri, et al.(2011). Systematic exploration of synergistic drug pairs. Molecular systems biology. 7. (1). p. 544. John Wiley \& Sons, Ltd Chichester, UK

Tasan, Murat, Arabidopsis Interactome Mapping Consortium, Dreze, Matija, Carvunis, Anne-Ruxandra, Charloteaux, Benoit, Galli, Mary, Pevzner, Samuel J, Ahn, Yong-Yeol, Balumuri, Padmavathi, Barabási, Albert-László, et al.(2011). Evidence for network evolution in an Arabidopsis interactome map. Science. 333. (6042). p. 601--607. American Association for the Advancement of Science

Beaver, John E, Taşan, Murat, Gibbons, Francis D, Tian, Weidong, Hughes, Timothy R, Roth, Frederick P(2010). FuncBase: a resource for quantitative gene function annotation. Bioinformatics. 26. (14). p. 1806--1807. Oxford University Press

Tasan, Murat, Tian, Weidong, Drabkin, Harold J, Hill, David P, Beaver, John E, Mehan, Mike, Black, Judith A, Roth, Frederick P(2010). Quantitative functional annotation of H. sapiens genes. Unpublished results.

Tasan, Murat, Braun, Pascal, Cusick, Michael, Hill, David E, Vidal, Marc(2010). Reply to" Exhaustive benchmarking of the yeast two-hybrid system". Nature methods.

Tasan, Murat, Braun, Pascal, Dreze, Matija, Barrios-Rodiles, Miriam, Lemmens, Irma, Yu, Haiyuan, Sahalie, Julie M, Murray, Ryan R, Roncari, Luba, De Smet, Anne-Sophie, et al.(2009). An experimentally derived confidence score for binary protein-protein interactions. Nature methods. 6. (1). p. 91--97. Nature Publishing Group US New York

Tasan, Murat, Simonis, Nicolas, Rual, Jean-François, Carvunis, Anne-Ruxandra, Lemmens, Irma, Hirozane-Kishikawa, Tomoko, Hao, Tong, Sahalie, Julie M, Venkatesan, Kavitha, Gebreab, Fana, et al.(2009). Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network. Nature methods. 6. (1). p. 47--54. Nature Publishing Group US New York

Tasan, Murat, Berriz, Gabriel F, Beaver, John E, Cenik, Can, Roth, Frederick P(2009). Next generation software for functional trend analysis. Bioinformatics. 25. (22). p. 3043--3044. Oxford University Press

Tasan, Murat, Peña-Castillo, Lourdes, Myers, Chad(2008). A critical assessment of Mus musculus gene function prediction using integrated genomic.

Tasan, Murat, Peña-Castillo, Lourdes, Myers, Chad L, Lee, Hyunju, Joshi, Trupti, Zhang, Chao, Guan, Yuanfang, Leone, Michele, Pagnani, Andrea, Kim, Wan Kyu, et al.(2008). A critical assessment of Mus musculus gene function prediction using integrated genomic evidence. Genome biology. 9. (Suppl 1). p. S2. BioMed Central London

Taşan, Murat, Tian, Weidong, Hill, David P, Gibbons, Francis D, Blake, Judith A, Roth, Frederick P(2008). An en masse phenotype and function prediction system for Mus musculus. Genome biology. 9. (Suppl 1). p. S8. BioMed Central London

Tian, Weidong, Zhang, Lan V, Taşan, Murat, Gibbons, Francis D, King, Oliver D, Park, Julie, Wunderlich, Zeba, Cherry, J Michael, Roth, Frederick P(2008). Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae gene function. Genome biology. 9. (Suppl 1). p. S7. BioMed Central London

Tian, Weidong, Zhang, Lan V, Taşan, Murat(2008). Combining guilt-by-association and guilt-by-profiling to predict Saccharomyces cerevisiae. Genome biology, 9. (Suppl 1).

Lewis, Gregory D, Wei, RU, Liu, Emerson, Yang, Elaine, Shi, Xu, Martinovic, Maryann, Farrell, Laurie, Asnani, Aarti, Cyrille, Marcoli, Ramanathan, Arvind, et al.(2008). Metabolite profiling of blood from individuals undergoing planned myocardial infarction reveals early markers of myocardial injury. The Journal of clinical investigation. 118. (10). p. 3503--3512. American Society for Clinical Investigation

Dupuy, Denis, Bertin, Nicolas, Hidalgo, César A, Venkatesan, Kavitha, Tu, Domena, Lee, David, Rosenberg, Jennifer, Svrzikapa, Nenad, Blanc, Aurélie, Carnec, Alain, et al.(2007). Genome-scale analysis of in vivo spatiotemporal promoter activity in Caenorhabditis elegans. Nature biotechnology. 25. (6). p. 663--668. Nature Publishing Group US New York

Tasan, Murat, Karakoc, Emre, Özsoyoglu, Z Meral, Sahinalp, Süleyman Cenk, Zhang, Xiang(2004). Novel Approaches to Biomolecular Sequence Indexing. IEEE Data Eng. Bull. 27. (3). p. 40--47. Citeseer

Tasan, Murat, Özsoyoglu, Z Meral, Nadeau, Joseph H, Özsoyoglu, Gultekin(2004). Towards an Integrated Software System for Biological Pathways. IEEE Data Eng. Bull. 27. (4). p. 53--60.

Tasan, Murat, Krishnamurthy, Larkshmi, Nadeau, Joseph, Ozsoyoglu, Gultekin, Ozsoyoglu, M, Schaeffer, Greg, Xu, Wanhong(2003). Pathways database system: an integrated system for biological pathways. Bioinformatics. 19. (8). p. 930--937. Oxford University Press

Tasan, Murat, Mellor, Joseph, Wu, Yingzhou, Pons, Carles, Wong, Cassandra, van Lieshout, Natascha, Yang, Fan, Tan, Guihong, Yang, Shan, Fowler, Douglas M, et al.Expanding the Atlas of Functional Missense Variation for Human Genes.

OTHER

De Nicolo, Arcangela, Haibe-Kains, Benjamin, Taşan, Murat, Cusick, Michael E, Vidal, Marc, Quackenbush, John, Joukov, Vladimir, Livingston, David M(2016). Analysis of BRCA1-related functional associations in sporadic triple negative breast cancer: A network-based approach. American Society of Clinical Oncology

CONFERENCE PAPER

Tasan, Murat, Oestergaard, Mikkel Z, Kalmyrzaev, Bolot, Tian, Weidong, Derti, Adnan, Tyrer, Jonathan, Ponder, Bruce AJ, Dunning, Alison, Easton, Douglas F, Roth, Frederick, et al.(2009). Systematic discovery of candidate genetic interactions leading to breast cancer susceptibility. MUTAGENESIS. 24. (1). p. 97--98.

Tasan, Murat, Ozsoyoglu, Z Meral(2004). Improvements in distance-based indexing. Proceedings. 16th International Conference on Scientific and Statistical Database Management, 2004. p. 161--170.

Tasan, Murat, Sahinalp, Süleyman Cenk, Macker, Jai, Ozsoyoglu, Z Meral(2003). Distance based indexing for string proximity search. Proceedings 19th International Conference on Data Engineering (Cat. No. 03CH37405). p. 125--136.

Krishnamurthy, L, Nadeau, J, Ozsoyoglu, G, Ozsoyoglu, M, Schaeffer, G, Tasan, M, Xu, W(2003). Pathways database system: an integrated set of tools for biological pathways. Proceedings of the 2003 ACM symposium on Applied computing. p. 96--102.

DISSERTATION THESIS

Tasan, Murat(2006). Distance-based indexing: Observations, applications, and improvements.