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Gregory P Way - Publications

Affiliations: 
2014-2018 University of Pennsylvania Perelman School of Medicine 
 2018-2021 Imaging Platform Broad Institute (MIT/Harvard) 
 2021- Biomedical Informatics University of Colorado Anschutz Medical Campus, Denver, Aurora, CO 
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39 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Tegtmeyer M, Arora J, Asgari S, Cimini BA, Nadig A, Peirent E, Liyanage D, Way GP, Weisbart E, Nathan A, Amariuta T, Eggan K, Haghighi M, McCarroll SA, O'Connor L, et al. High-dimensional phenotyping to define the genetic basis of cellular morphology. Nature Communications. 15: 347. PMID 38184653 DOI: 10.1038/s41467-023-44045-w  0.781
2023 Serrano E, Chandrasekaran SN, Bunten D, Brewer KI, Tomkinson J, Kern R, Bornholdt M, Fleming S, Pei R, Arevalo J, Tsang H, Rubinetti V, Tromans-Coia C, Becker T, Weisbart E, ... ... Way GP, et al. Reproducible image-based profiling with Pycytominer. Arxiv. PMID 38045474  0.523
2023 Davidson NR, Barnard ME, Hippen AA, Campbell A, Johnson C, Way GP, Dalley BK, Berchuck A, Salas LA, Peres LC, Marks JR, Schildkraut JM, Greene CS, Doherty JA. Molecular subtypes of high grade serous ovarian cancer across racial groups and gene expression platforms. Biorxiv : the Preprint Server For Biology. PMID 37961178 DOI: 10.1101/2023.11.01.565179  0.541
2023 Carragher NO, Wardwell-Swanson J, Way GP. High-content imaging 2023: A joint special collection with the society for biomolecular imaging. Slas Discovery : Advancing Life Sciences R & D. PMID 37821045 DOI: 10.1016/j.slasd.2023.10.001  0.406
2023 Kelley ME, Berman AY, Stirling DR, Cimini BA, Han Y, Singh S, Carpenter AE, Kapoor TM, Way GP. High-content microscopy reveals a morphological signature of bortezomib resistance. Elife. 12. PMID 37753907 DOI: 10.7554/eLife.91362  0.762
2023 Way GP, Sailem H, Shave S, Kasprowicz R, Carragher NO. Evolution and impact of high content imaging. Slas Discovery : Advancing Life Sciences R & D. PMID 37666456 DOI: 10.1016/j.slasd.2023.08.009  0.465
2023 Ramezani M, Bauman J, Singh A, Weisbart E, Yong J, Lozada M, Way GP, Kavari SL, Diaz C, Haghighi M, Batista TM, Pérez-Schindler J, Claussnitzer M, Singh S, Cimini BA, et al. A genome-wide atlas of human cell morphology. Biorxiv : the Preprint Server For Biology. PMID 37609130 DOI: 10.1101/2023.08.06.552164  0.788
2023 Shapiro JA, Gaonkar KS, Spielman SJ, Savonen CL, Bethell CJ, Jin R, Rathi KS, Zhu Y, Egolf LE, Farrow BK, Miller DP, Yang Y, Koganti T, Noureen N, Koptyra MP, ... ... Way GP, et al. OpenPBTA: The Open Pediatric Brain Tumor Atlas. Cell Genomics. 3: 100340. PMID 37492101 DOI: 10.1016/j.xgen.2023.100340  0.75
2023 Laber S, Strobel S, Mercader JM, Dashti H, Dos Santos FRC, Kubitz P, Jackson M, Ainbinder A, Honecker J, Agrawal S, Garborcauskas G, Stirling DR, Leong A, Figueroa K, Sinnott-Armstrong N, ... ... Way GP, et al. Discovering cellular programs of intrinsic and extrinsic drivers of metabolic traits using LipocyteProfiler. Cell Genomics. 3: 100346. PMID 37492099 DOI: 10.1016/j.xgen.2023.100346  0.745
2022 Way GP, Natoli T, Adeboye A, Litichevskiy L, Yang A, Lu X, Caicedo JC, Cimini BA, Karhohs K, Logan DJ, Rohban MH, Kost-Alimova M, Hartland K, Bornholdt M, Chandrasekaran SN, et al. Morphology and gene expression profiling provide complementary information for mapping cell state. Cell Systems. 13: 911-923.e9. PMID 36395727 DOI: 10.1016/j.cels.2022.10.001  0.766
2022 Chow YL, Singh S, Carpenter AE, Way GP. Predicting drug polypharmacology from cell morphology readouts using variational autoencoder latent space arithmetic. Plos Computational Biology. 18: e1009888. PMID 35213530 DOI: 10.1371/journal.pcbi.1009888  0.724
2022 Way GP, Spitzer H, Burnham P, Raj A, Theis F, Singh S, Carpenter AE. Image-based profiling: a powerful and challenging new data type. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 27: 407-411. PMID 34890168  0.774
2021 Way GP, Greene CS, Carninci P, Carvalho BS, de Hoon M, Finley S, Gosline SJC, Lȇ Cao KA, Lee JSH, Marchionni L, Robine N, Sindi SS, Theis FJ, Yang JYH, Carpenter AE, et al. A field guide to cultivating computational biology. Plos Biology. 19: e3001419. PMID 34618807 DOI: 10.1371/journal.pbio.3001419  0.647
2021 Wilson SL, Way GP, Bittremieux W, Armache JP, Haendel MA, Hoffman MM. Sharing biological data: why, when, and how. Febs Letters. 595: 847-863. PMID 33843054 DOI: 10.1002/1873-3468.14067  0.301
2021 Way GP, Kost-Alimova M, Shibue T, Harrington WF, Gill S, Piccioni F, Becker T, Shafqat-Abbasi H, Hahn WC, Carpenter AE, Vazquez F, Singh S. Predicting cell health phenotypes using image-based morphology profiling. Molecular Biology of the Cell. mbcE20120784. PMID 33534641 DOI: 10.1091/mbc.E20-12-0784  0.775
2021 Cousminer DL, Wagley Y, Pippin JA, Elhakeem A, Way GP, Pahl MC, McCormack SE, Chesi A, Mitchell JA, Kindler JM, Baird D, Hartley A, Howe L, Kalkwarf HJ, Lappe JM, et al. Genome-wide association study implicates novel loci and reveals candidate effector genes for longitudinal pediatric bone accrual. Genome Biology. 22: 1. PMID 33397451 DOI: 10.1186/s13059-020-02207-9  0.53
2020 Way GP, Zietz M, Rubinetti V, Himmelstein DS, Greene CS. Compressing gene expression data using multiple latent space dimensionalities learns complementary biological representations. Genome Biology. 21: 109. PMID 32393369 DOI: 10.1186/S13059-020-02021-3  0.765
2020 Upton K, Modi A, Patel K, Kendsersky NM, Conkrite KL, Sussman RT, Way GP, Adams RN, Sacks GI, Fortina P, Diskin SJ, Maris JM, Rokita JL. Epigenomic profiling of neuroblastoma cell lines. Scientific Data. 7: 116. PMID 32286315 DOI: 10.1038/S41597-020-0458-Y  0.34
2019 Martinez-Lage M, Lynch TM, Bi Y, Cocito C, Way GP, Pal S, Haller J, Yan RE, Ziober A, Nguyen A, Kandpal M, O'Rourke DM, Greenfield JP, Greene CS, Davuluri RV, et al. Immune landscapes associated with different glioblastoma molecular subtypes. Acta Neuropathologica Communications. 7: 203. PMID 31815646 DOI: 10.1186/S40478-019-0803-6  0.542
2019 Lin YT, Way GP, Barwick BG, Mariano MC, Marcoulis M, Ferguson ID, Driessen C, Boise LH, Greene CS, Wiita AP. Integrated phosphoproteomics and transcriptional classifiers reveal hidden RAS signaling dynamics in multiple myeloma. Blood Advances. 3: 3214-3227. PMID 31698452 DOI: 10.1182/Bloodadvances.2019000303  0.56
2019 Rokita JL, Rathi KS, Cardenas MF, Upton KA, Jayaseelan J, Cross KL, Pfeil J, Egolf LE, Way GP, Farrel A, Kendsersky NM, Patel K, Gaonkar KS, Modi A, Berko ER, et al. Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design. Cell Reports. 29: 1675-1689.e9. PMID 31693904 DOI: 10.1016/J.Celrep.2019.09.071  0.562
2019 Way GP, Greene CS. Discovering Pathway and Cell Type Signatures in Transcriptomic Compendia with Machine Learning Annual Review of Biomedical Data Science. 2: 1-17. DOI: 10.1146/ANNUREV-BIODATASCI-072018-021348  0.603
2018 Way GP, Greene CS. Bayesian deep learning for single-cell analysis. Nature Methods. 15: 1009-1010. PMID 30504887 DOI: 10.1038/S41592-018-0230-9  0.581
2018 Chen KM, Tan J, Way GP, Doing G, Hogan DA, Greene CS. PathCORE-T: identifying and visualizing globally co-occurring pathways in large transcriptomic compendia. Biodata Mining. 11: 14. PMID 29988723 DOI: 10.1186/S13040-018-0175-7  0.647
2018 Sanchez-Vega F, Mina M, Armenia J, Chatila WK, Luna A, La KC, Dimitriadoy S, Liu DL, Kantheti HS, Saghafinia S, Chakravarty D, Daian F, Gao Q, Bailey MH, Liang WW, ... ... Way GP, et al. Oncogenic Signaling Pathways in The Cancer Genome Atlas. Cell. 173: 321-337.e10. PMID 29625050 DOI: 10.1016/J.Cell.2018.03.035  0.565
2018 Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow PM, Zietz M, Hoffman MM, Xie W, Rosen GL, Lengerich BJ, Israeli J, Lanchantin J, et al. Opportunities and obstacles for deep learning in biology and medicine. Journal of the Royal Society, Interface. 15. PMID 29618526 DOI: 10.1098/Rsif.2017.0387  0.725
2018 Knijnenburg TA, Wang L, Zimmermann MT, Chambwe N, Gao GF, Cherniack AD, Fan H, Shen H, Way GP, Greene CS, Liu Y, Akbani R, Feng B, Donehower LA, Miller C, et al. Genomic and Molecular Landscape of DNA Damage Repair Deficiency across The Cancer Genome Atlas. Cell Reports. 23: 239-254.e6. PMID 29617664 DOI: 10.1016/J.Celrep.2018.03.076  0.561
2018 Way GP, Sanchez-Vega F, La K, Armenia J, Chatila WK, Luna A, Sander C, Cherniack AD, Mina M, Ciriello G, Schultz N, Sanchez Y, Greene CS. Machine Learning Detects Pan-cancer Ras Pathway Activation in The Cancer Genome Atlas. Cell Reports. 23: 172-180.e3. PMID 29617658 DOI: 10.1016/J.Celrep.2018.03.046  0.569
2018 Harrington LX, Way GP, Doherty JA, Greene CS. Functional network community detection can disaggregate and filter multiple underlying pathways in enrichment analyses. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 157-167. PMID 29218878  0.569
2018 Way GP, Greene CS. Extracting a biologically relevant latent space from cancer transcriptomes with variational autoencoders. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 23: 80-91. PMID 29218871  0.614
2017 Doherty JA, Peres LC, Wang C, Way GP, Greene CS, Schildkraut JM. Challenges and Opportunities in Studying the Epidemiology of Ovarian Cancer Subtypes. Current Epidemiology Reports. 4: 211-220. PMID 29226065 DOI: 10.1007/S40471-017-0115-Y  0.571
2017 Titus AJ, Way GP, Johnson KC, Christensen BC. Deconvolution of DNA methylation identifies differentially methylated gene regions on 1p36 across breast cancer subtypes. Scientific Reports. 7: 11594. PMID 28912426 DOI: 10.1038/s41598-017-10199-z  0.305
2017 Way GP, Youngstrom DW, Hankenson KD, Greene CS, Grant SF. Implicating candidate genes at GWAS signals by leveraging topologically associating domains. European Journal of Human Genetics : Ejhg. PMID 28792001 DOI: 10.1038/Ejhg.2017.108  0.574
2017 Way GP, Allaway RJ, Bouley SJ, Fadul CE, Sanchez Y, Greene CS. A machine learning classifier trained on cancer transcriptomes detects NF1 inactivation signal in glioblastoma. Bmc Genomics. 18: 127. PMID 28166733 DOI: 10.1186/S12864-017-3519-7  0.551
2016 Way GP, Rudd J, Wang C, Hamidi H, Fridley BL, Konecny GE, Goode EL, Greene CS, Doherty JA. Comprehensive Cross-Population Analysis of High-Grade Serous Ovarian Cancer Supports No More Than Three Subtypes. G3 (Bethesda, Md.). PMID 27729437 DOI: 10.1534/G3.116.033514  0.557
2016 Way GP, Southwell M, McRobert SP. Boldness, Aggression, and Shoaling Assays for Zebrafish Behavioral Syndromes. Journal of Visualized Experiments : Jove. PMID 27684060 DOI: 10.3791/54049  0.249
2015 McRobert SP, Moss S, Tittaferrante S, Way GP, Fuller A, Sullivan N, Ruhl N. Interactions between aggression, boldness and shoaling within a brood of convict cichlids (Amatitlania nigrofasciatus). Behavioural Processes. PMID 26497098 DOI: 10.1016/j.beproc.2015.10.012  0.205
2015 Way GP, Ruhl N, Snekser JL, Kiesel AL, McRobert SP. A comparison of methodologies to test aggression in zebrafish. Zebrafish. 12: 144-51. PMID 25621988 DOI: 10.1089/zeb.2014.1025  0.247
2015 Way GP, Kiesel AL, Ruhl N, Snekser JL, McRobert SP. Sex differences in a shoaling-boldness behavioral syndrome, but no link with aggression. Behavioural Processes. 113: 7-12. PMID 25562194 DOI: 10.1016/J.Beproc.2014.12.014  0.206
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