PNNL

Sara Gosline received BA in Computer Science from Columbia University and spent two years working in software before returning to graduate school full time. She received her Masters and PhD in Computer Science from McGill University with a specialty in Bioinformatics and then moved to the Massachusetts Institute of Technology where she worked as a postdoctoral researcher in the Department of Biological Engineering with Ernest Fraenkel and Phillip Sharp, focusing on employing computational algorithms to disentangle biological data from cancer and other diseases.

Since completing her training, she worked at Sage Bionetworks, a non-profit that focuses on accelerating the pace of biomedical research through enabling data sharing and collaboration, where she focused on supporting scientific discoveries in rare disease. She has since become a research scientist at Pacific Northwest National Laboratory. Sara's research program at PNNL focuses on building computational models that leverage cancer model systems such as cell lines and organoids to identify potential drug combinations to better treat patients. Toward this end she curates high throughput datasets and develops machine learning approaches that predict drug efficacy across various cancers including Acute Myeloid Leukemia and rare cancers such as those that arise from Neurofibromatosis Type 1. She works closely with the mass spectrometry facility to leverage proteomic, phosphoproteomic, and other molecular measurements to develop algorithms that measure how cellular pathways respond to tumor growth.

• Cancer Systems Biology
• Graphical Network Algorithms
• Genomics, Transcriptomics, and Proteomics
• Neurofibromatosis and Rare Disease
• Open Science and Reproducible Research

• PhD in Computer Science, McGill University, 2010
• MS in Computer Science, McGill University, 2005
• BA in Computer Science, Columbia University in the City of New York, 2001

• Founding Member, Association of Cancer Systems Biologists

• Transporting Image Files: US7877567B2

Google Scholar Profile

2024

• Pino, James C, Camilo Posso, Sunil K Joshi, Michael Nestor, Jamie Moon, Joshua R Hansen, Chelsea Hutchinson-Bunch, Marina A Gritsenko, Karl K Weitz, and Kevin Watanabe-Smith. 2024. “Mapping the Proteogenomic Landscape Enables Prediction of Drug Response in Acute Myeloid Leukemia.” Cell Reports Medicine 5 (1).

2023

• Wang, Jiawan, Ana Calizo, Lindy Zhang, James C Pino, Yang Lyu, Kai Pollard, Xiaochun Zhang, Alex T Larsson, Eric Conniff, and Nicolas J Llosa. 2023. “CDK4/6 Inhibition Enhances SHP2 Inhibitor Efficacy and Is Dependent upon RB Function in Malignant Peripheral Nerve Sheath Tumors.” Science Advances 9 (47): eadg8876.
• Larsson, Alex T, Himanshi Bhatia, Ana Calizo, Kai Pollard, Xiaochun Zhang, Eric Conniff, Justin F Tibbitts, Elizabeth Rono, Katherine Cummins, and Sara H Osum. 2023. “Ex Vivo to in Vivo Model of Malignant Peripheral Nerve Sheath Tumors for Precision Oncology.” Neuro-Oncology, noad097.
• Gosline, Sara JC, Doo Nam Kim, Paritosh Pande, Dennis G Thomas, Lisa Truong, Peter Hoffman, Michael Barton, Joseph Loftus, Addy Moran, and Shawn Hampton. 2023. “The Superfund Research Program Analytics Portal: Linking Environmental Chemical Exposure to Biological Phenotypes.” Scientific Data 10 (1): 151.
• Zitnik, Marinka, Michelle M Li, Aydin Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, TM Murali, Predrag Radivojac, Sushmita Roy, and Anaïs Baudot. 2023. “Current and Future Directions in Network Biology.” arXiv Preprint arXiv:2309.08478.
• Gosline, Sara JC, Marija Veličković, James C Pino, Le Z Day, Isaac K Attah, Adam C Swensen, Vincent Danna, Camilo Posso, Karin D Rodland, and Jing Chen. 2023. “Proteome Mapping of the Human Pancreatic Islet Microenvironment Reveals Endocrine–Exocrine Signaling Sphere of Influence.” Molecular & Cellular Proteomics 22 (8).

2021

• Way, Gregory P, Casey S Greene, Piero Carninci, Benilton S Carvalho, Michiel de Hoon, Stacey D Finley, Sara JC Gosline, Kim-Anh Lȇ Cao, Jerry SH Lee, and Luigi Marchionni. 2021. “A Field Guide to Cultivating Computational Biology.” PLoS Biology 19 (10): e3001419.

2020

• Pollard K, Banerjee J, Doan X, Wang J, Guo X, Allaway R, Langmead S, Slobogean B, Meyer CF, Loeb DM, Morris CD, Belzberg AJ, Blakeley JO, Rodriguez FJ, Guinney J, Gosline SJC, Pratilas CA. 2020. “A clinically and genomically annotated nerve sheath tumor biospecimen repository.” Sci Data. Jun 19;7(1):184. doi: 10.1038/s41597-020-0508-5. PubMed PMID: 32561749; PubMed Central PMCID: PMC7305302.
• Banerjee J, Allaway RJ, Taroni JN, Baker A, Zhang X, Moon CI, Pratilas CA, Blakeley JO, Guinney J, Hirbe A, Greene CS, Gosline SJ. 2020. “Integrative Analysis Identifies Candidate Tumor Microenvironment and Intracellular Signaling Pathways that Define Tumor Heterogeneity in NF1.” Genes (Basel).  Feb 21;11(2). doi: 10.3390/genes11020226. PubMed PMID: 32098059; PubMed Central PMCID: PMC7073563.

2019

• Allaway RJ, La Rosa S, Verma S, Mangravite L, Guinney J, Blakeley J, Bakker A, Gosline SJC. 2019. “Engaging a community to enable disease-centric data sharing with the NF Data Portal.” Sci Data. 2019 Dec 13;6(1):319. doi: 10.1038/s41597-019-0317-x. PubMed PMID: 31836719; PubMed Central PMCID: PMC6910996.
•  Rice FL, Houk G, Wymer JP, Gosline SJC, Guinney J, Wu J, Ratner N, Jankowski MP, La Rosa S, Dockum M, Storey JR, Carroll SL, Albrecht PJ, Riccardi VM. 2019. “The evolution and multi-molecular properties of NF1 cutaneous neurofibromas originating from C-fiber sensory endings and terminal Schwann cells at normal sites of sensory terminations in the skin.” PLoS One. 2019;14(5):e0216527. doi: 10.1371/journal.pone.0216527. eCollection 2019. PubMed PMID: 31107888; PubMed Central PMCID: PMC6527217.
• Chen Z, Mo J, Brosseau JP, Shipman T, Wang Y, Liao CP, Cooper JM, Allaway RJ, Gosline SJC, Guinney J, Carroll TJ, Le LQ. 2019. “Spatiotemporal Loss of NF1 in Schwann Cell Lineage Leads to Different Types of Cutaneous Neurofibroma Susceptible to Modification by the Hippo Pathway.” Cancer Discov. 2019 Jan;9(1):114-129. doi: 10.1158/2159-8290.CD-18-0151. Epub 2018 Oct 22. PubMed PMID: 30348677; PubMed Central PMCID: PMC6328325.

2018

•  Allaway RJ, La Rosa S, Guinney J, Gosline SJC. 2018. “Probing the chemical-biological relationship space with the Drug Target Explorer.” J Cheminform. 2018 Aug 20;10(1):41. doi: 10.1186/s13321-018-0297-4. PubMed PMID: 30128806; PubMed Central PMCID: PMC6102167.
• Ferrer M, Gosline SJC, Stathis M, Zhang X, Guo X, Guha R, Ryman DA, Wallace MR, Kasch-Semenza L, Hao H, Ingersoll R, Mohr D, Thomas C, Verma S, Guinney J, Blakeley JO. 2018. “Pharmacological and genomic profiling of neurofibromatosis type 1 plexiform neurofibroma-derived schwann cells.” Sci Data. 2018 Jun 12;5:180106. doi: 10.1038/sdata.2018.106. PubMed PMID: 29893754; PubMed Central PMCID: PMC5996849.
•  Allaway RJ, Gosline SJC, La Rosa S, Knight P, Bakker A, Guinney J, Le LQ. 2018. “Cutaneous neurofibromas in the genomics era: current understanding and open questions.” Br J Cancer. 2018 Jun;118(12):1539-1548. doi: 10.1038/s41416-018-0073-2. Epub 2018 Apr 26. Review. PubMed PMID: 29695767; PubMed Central PMCID: PMC6008439.

2017

• Ursu O, Gosline SJC, Beeharry N, Fink L, Bhattacharjee V, Huang SC, Zhou Y, Yen T, Fraenkel E. 2017. “Network modeling of kinase inhibitor polypharmacology reveals pathways targeted in chemical screens.” PLoS One. 2017;12(10):e0185650. doi: 10.1371/journal.pone.0185650. eCollection 2017. PubMed PMID: 29023490; PubMed Central PMCID: PMC5638242.
• Gosline SJ, Weinberg H, Knight P, Yu T, Guo X, Prasad N, Jones A, Shrestha S, Boone B, Levy SE, La Rosa S, Guinney J, Bakker A. 2017. “A high-throughput molecular data resource for cutaneous neurofibromas.” Sci Data. 2017 Apr 11;4:170045. doi: 10.1038/sdata.2017.45. PubMed PMID: 28398289; PubMed Central PMCID: PMC5387919.

2016

• Archer TC, Fertig EJ, Gosline SJ, Hafner M, Hughes SK, Joughin BA, Meyer AS, Piccolo SR, Shajahan-Haq AN. 2016. “Systems Approaches to Cancer Biology.” Cancer Res. 2016 Dec 1;76(23):6774-6777. doi: 10.1158/0008-5472.CAN-16-1580. Epub 2016 Nov 18. PubMed PMID: 27864348; PubMed Central PMCID: PMC5135591.
• Wilson JL, Dalin S, Gosline S, Hemann M, Fraenkel E, Lauffenburger DA. 2016. "Pathway-based network modeling finds hidden genes in shRNA screen for regulators of acute lymphoblastic leukemia.” Integr Biol (Camb). 2016 Jul 11;8(7):761-74. doi: 10.1039/c6ib00040a. Epub 2016 Jun 17. PubMed PMID: 27315426; PubMed Central PMCID: PMC5224708.
• Tuncbag N, Gosline SJ, Kedaigle A, Soltis AR, Gitter A, Fraenkel E. 2016. “Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package.” PLoS Comput Biol. 2016 Apr;12(4):e1004879. doi: 10.1371/journal.pcbi.1004879. eCollection 2016 Apr. PubMed PMID: 27096930; PubMed Central PMCID: PMC4838263.
•  Gosline SJ, Gurtan AM, JnBaptiste CK, Bosson A, Milani P, Dalin S, Matthews BJ, Yap YS, Sharp PA, Fraenkel E. 2016. “Elucidating MicroRNA Regulatory Networks Using Transcriptional, Post-transcriptional, and Histone Modification Measurements.” Cell Rep. 2016 Jan 12;14(2):310-9. doi: 10.1016/j.celrep.2015.12.031. Epub 2015 Dec 31. PubMed PMID: 26748710; PubMed Central PMCID: PMC4831719.

2015

• Gosline SJ, Oh C, Fraenkel E. 2015. “SAMNetWeb: identifying condition-specific networks linking signaling and transcription.” Bioinformatics. 2015 Apr 1;31(7):1124-6. doi: 10.1093/bioinformatics/btu748. Epub 2014 Nov 19. PubMed PMID: 25414365; PubMed Central PMCID: PMC4382899.

2013

• Pluquet O, Dejeans N, Bouchecareilh M, Lhomond S, Pineau R, Higa A, Delugin M, Combe C, Loriot S, Cubel G, Dugot-Senant N, Vital A, Loiseau H, Gosline SJ, Taouji S, Hallett M, Sarkaria JN, Anderson K, Wu W, Rodriguez FJ, Rosenbaum J, Saltel F, Fernandez-Zapico ME, Chevet E. 2013. “Posttranscriptional regulation of PER1 underlies the oncogenic function of IREα.” Cancer Res. 2013 Aug 1;73(15):4732-43. doi: 10.1158/0008-5472.CAN-12-3989. Epub 2013 Jun 10. PubMed PMID: 23752693; PubMed Central PMCID: PMC3915716.
• Huang SS, Clarke DC, Gosline SJ, Labadorf A, Chouinard CR, Gordon W, Lauffenburger DA, Fraenkel E. 2013. “Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling.” PLoS Comput Biol. 2013;9(2):e1002887. doi: 10.1371/journal.pcbi.1002887. Epub 2013 Feb 7. PubMed PMID: 23408876; PubMed Central PMCID: PMC3567149.

2012

• Gosline SJ, Spencer SJ, Ursu O, Fraenkel E. 2012. “SAMNet: a network-based approach to integrate multi-dimensional high throughput datasets.” Integr Biol (Camb). 2012 Nov;4(11):1415-27. doi: 10.1039/c2ib20072d. PubMed PMID: 23060147; PubMed Central PMCID: PMC3501250.
• Pla-Roca M, Leulmi RF, Tourekhanova S, Bergeron S, Laforte V, Moreau E, Gosline SJ, Bertos N, Hallett M, Park M, Juncker D. 2012. “Antibody colocalization microarray: a scalable technology for multiplex protein analysis in complex samples.” Mol Cell Proteomics. 2012 Apr;11(4):M111.011460. doi: 10.1074/mcp.M111.011460. Epub 2011 Dec 14. PubMed PMID: 22171321; PubMed Central PMCID: PMC3322566.

2011

•  Gosline SJ, Nascimento M, McCall LI, Zilberstein D, Thomas DY, Matlashewski G, Hallett M. 2011. “Intracellular eukaryotic parasites have a distinct unfolded protein response.” PLoS One. 2011 Apr 29;6(4):e19118. doi: 10.1371/journal.pone.0019118. PubMed PMID: 21559456; PubMed Central PMCID: PMC3084755.

2006

• Gilchrist A, Au CE, Hiding J, Bell AW, Fernandez-Rodriguez J, Lesimple S, Nagaya H, Roy L, Gosline SJ, Hallett M, Paiement J, Kearney RE, Nilsson T, Bergeron JJ. 2006. “Quantitative proteomics analysis of the secretory pathway.” Cell. 2006 Dec 15;127(6):1265-81. doi: 10.1016/j.cell.2006.10.036. PubMed PMID: 17174899.

2005

• Scott MS, Calafell SJ, Thomas DY, Hallett MT. 2005. “Refining protein subcellular localization.” PLoS Comput Biol. 2005 Nov;1(6):e66. doi: 10.1371/journal.pcbi.0010066. Epub 2005 Nov 25. PubMed PMID: 16322766; PubMed Central PMCID: PMC1289393.