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Year Number of Results
2010 1
2011 1
2012 2
2013 3
2014 2
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2016 3
2017 2
2018 5
2019 3
2020 9
2021 4
2022 6
2023 1
2024 4
2025 4

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48 results

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Page 1
The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution.
Rozenblatt-Rosen O, Regev A, Oberdoerffer P, Nawy T, Hupalowska A, Rood JE, Ashenberg O, Cerami E, Coffey RJ, Demir E, Ding L, Esplin ED, Ford JM, Goecks J, Ghosh S, Gray JW, Guinney J, Hanlon SE, Hughes SK, Hwang ES, Iacobuzio-Donahue CA, Jané-Valbuena J, Johnson BE, Lau KS, Lively T, Mazzilli SA, Pe'er D, Santagata S, Shalek AK, Schapiro D, Snyder MP, Sorger PK, Spira AE, Srivastava S, Tan K, West RB, Williams EH; Human Tumor Atlas Network. Rozenblatt-Rosen O, et al. Among authors: goecks j. Cell. 2020 Apr 16;181(2):236-249. doi: 10.1016/j.cell.2020.03.053. Cell. 2020. PMID: 32302568 Free PMC article. Review.
MITI minimum information guidelines for highly multiplexed tissue images.
Schapiro D, Yapp C, Sokolov A, Reynolds SM, Chen YA, Sudar D, Xie Y, Muhlich J, Arias-Camison R, Arena S, Taylor AJ, Nikolov M, Tyler M, Lin JR, Burlingame EA; Human Tumor Atlas Network; Chang YH, Farhi SL, Thorsson V, Venkatamohan N, Drewes JL, Pe'er D, Gutman DA, Herrmann MD, Gehlenborg N, Bankhead P, Roland JT, Herndon JM, Snyder MP, Angelo M, Nolan G, Swedlow JR, Schultz N, Merrick DT, Mazzili SA, Cerami E, Rodig SJ, Santagata S, Sorger PK. Schapiro D, et al. Nat Methods. 2022 Mar;19(3):262-267. doi: 10.1038/s41592-022-01415-4. Nat Methods. 2022. PMID: 35277708 Free PMC article.
Ongoing replication stress tolerance and clonal T cell responses distinguish liver and lung recurrence and outcomes in pancreatic cancer.
Link JM, Eng JR, Pelz C, MacPherson-Hawthorne K, Worth PJ, Sivagnanam S, Keith DJ, Owen S, Langer EM, Grossblatt-Wait A, Salgado-Garza G, Creason AL, Protzek S, Egger J, Holly H, Heskett MB, Chin K, Kirchberger N, Betre K, Bucher E, Kilburn D, Hu Z, Munks MW, English IA, Tsuda M, Goecks J, Demir E, Adey AC, Kardosh A, Lopez CD, Sheppard BC, Guimaraes A, Brinkerhoff B, Morgan TK, Mills GB, Coussens LM, Brody JR, Sears RC. Link JM, et al. Among authors: goecks j. Nat Cancer. 2025 Jan;6(1):123-144. doi: 10.1038/s43018-024-00881-3. Epub 2025 Jan 9. Nat Cancer. 2025. PMID: 39789181 Free PMC article.
How Machine Learning Will Transform Biomedicine.
Goecks J, Jalili V, Heiser LM, Gray JW. Goecks J, et al. Cell. 2020 Apr 2;181(1):92-101. doi: 10.1016/j.cell.2020.03.022. Cell. 2020. PMID: 32243801 Free PMC article. Review.
Machine Learning Links T-cell Function and Spatial Localization to Neoadjuvant Immunotherapy and Clinical Outcome in Pancreatic Cancer.
Blise KE, Sivagnanam S, Betts CB, Betre K, Kirchberger N, Tate BJ, Furth EE, Dias Costa A, Nowak JA, Wolpin BM, Vonderheide RH, Goecks J, Coussens LM, Byrne KT. Blise KE, et al. Among authors: goecks j. Cancer Immunol Res. 2024 May 2;12(5):544-558. doi: 10.1158/2326-6066.CIR-23-0873. Cancer Immunol Res. 2024. PMID: 38381401 Free PMC article.
Informatics at the Frontier of Cancer Research.
Noller K, Botsis T, Camara PG, Ciotti L, Cooper LAD, Goecks J, Griffith M, Haas BJ, Ideker T, Karchin R, Kontos D, Lai J, Marcus D, Meyer CA, Naegle K, Pati S, Peters B, Pratt D, Raphael BJ, Reich M, Savova GK, Wright C, Fertig EJ, Bakas S. Noller K, et al. Among authors: goecks j. Cancer Res. 2025 Aug 15;85(16):2967-2986. doi: 10.1158/0008-5472.CAN-24-2829. Cancer Res. 2025. PMID: 40600473 Free PMC article. Review.
Practical Computational Reproducibility in the Life Sciences.
Grüning B, Chilton J, Köster J, Dale R, Soranzo N, van den Beek M, Goecks J, Backofen R, Nekrutenko A, Taylor J. Grüning B, et al. Among authors: goecks j. Cell Syst. 2018 Jun 27;6(6):631-635. doi: 10.1016/j.cels.2018.03.014. Cell Syst. 2018. PMID: 29953862 Free PMC article.
MCMICRO: a scalable, modular image-processing pipeline for multiplexed tissue imaging.
Schapiro D, Sokolov A, Yapp C, Chen YA, Muhlich JL, Hess J, Creason AL, Nirmal AJ, Baker GJ, Nariya MK, Lin JR, Maliga Z, Jacobson CA, Hodgman MW, Ruokonen J, Farhi SL, Abbondanza D, McKinley ET, Persson D, Betts C, Sivagnanam S, Regev A, Goecks J, Coffey RJ, Coussens LM, Santagata S, Sorger PK. Schapiro D, et al. Among authors: goecks j. Nat Methods. 2022 Mar;19(3):311-315. doi: 10.1038/s41592-021-01308-y. Epub 2021 Nov 25. Nat Methods. 2022. PMID: 34824477 Free PMC article.
Federated Galaxy: Biomedical Computing at the Frontier.
Afgan E, Jalili V, Goonasekera N, Taylor J, Goecks J. Afgan E, et al. Among authors: goecks j. IEEE Int Conf Cloud Comput. 2018 Jul;2018:10.1109/cloud.2018.00124. doi: 10.1109/cloud.2018.00124. Epub 2018 Sep 10. IEEE Int Conf Cloud Comput. 2018. PMID: 34386295 Free PMC article.
48 results