☰

Sydney Shaffer - Publications

Affiliations: 
University of Pennsylvania, Philadelphia, PA, United States 
Tree Info Similar researchers PubMed Report error

22 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
2025 Kinsler G, Fagan C, Li H, Kaster J, Dunne M, Vander Velde RJ, Boe RH, Shaffer S, Herlyn M, Raj A, Heyman Y. SpaceBar enables clone tracing in spatial transcriptomic data. Biorxiv : the Preprint Server For Biology. PMID 39990434 DOI: 10.1101/2025.02.10.637514  0.526
2025 Wahlsten M, Shaffer SM. Unveiling heterogeneity in rare cells by combining RNA-based sorting and scRNA-seq. Nature Genetics. PMID 39920268 DOI: 10.1038/s41588-024-02073-2  0.409
2024 Reyes Hueros RA, Gier RA, Shaffer SM. Non-genetic differences underlie variability in proliferation among esophageal epithelial clones. Plos Computational Biology. 20: e1012360. PMID 39466790 DOI: 10.1371/journal.pcbi.1012360  0.354
2024 Vargas-Castillo A, Sun Y, Smythers AL, Grauvogel L, Dumesic PA, Emont MP, Tsai LT, Rosen ED, Zammit NW, Shaffer SM, Ordonez M, Chouchani ET, Gygi SP, Wang T, Sharma AK, et al. Development of a functional beige fat cell line uncovers independent subclasses of cells expressing UCP1 and the futile creatine cycle. Cell Metabolism. PMID 39084217 DOI: 10.1016/j.cmet.2024.07.002  0.311
2024 Schaff DL, Fasse AJ, White PE, Vander Velde RJ, Shaffer SM. Clonal differences underlie variable responses to sequential and prolonged treatment. Cell Systems. 15: 213-226.e9. PMID 38401539 DOI: 10.1016/j.cels.2024.01.011  0.325
2023 Schaff DL, Fasse AJ, White PE, Vander Velde RJ, Shaffer SM. Clonal differences underlie variable responses to sequential and prolonged treatment. Biorxiv : the Preprint Server For Biology. PMID 36993721 DOI: 10.1101/2023.03.24.534152  0.325
2022 Acheampong KK, Schaff DL, Emert BL, Lake J, Reffsin S, Shea EK, Comar CE, Litzky LA, Khurram NA, Linn RL, Feldman M, Weiss SR, Montone KT, Cherry S, Shaffer SM. Subcellular Detection of SARS-CoV-2 RNA in Human Tissue Reveals Distinct Localization in Alveolar Type 2 Pneumocytes and Alveolar Macrophages. Mbio. e0375121. PMID 35130722 DOI: 10.1128/mbio.03751-21  0.414
2021 Acheampong KK, Schaff DL, Emert BL, Lake J, Reffsin S, Shea EK, Comar CE, Litzky LA, Khurram NA, Linn RL, Feldman M, Weiss SR, Montone KT, Cherry S, Shaffer SM. Multiplexed detection of SARS-CoV-2 genomic and subgenomic RNA using hybridization. Biorxiv : the Preprint Server For Biology. PMID 34401878 DOI: 10.1101/2021.08.11.455959  0.425
2021 Emert BL, Cote CJ, Torre EA, Dardani IP, Jiang CL, Jain N, Shaffer SM, Raj A. Variability within rare cell states enables multiple paths toward drug resistance. Nature Biotechnology. PMID 33619394 DOI: 10.1038/s41587-021-00837-3  0.562
2021 Torre EA, Arai E, Bayatpour S, Jiang CL, Beck LE, Emert BL, Shaffer SM, Mellis IA, Fane ME, Alicea GM, Budinich KA, Weeraratna AT, Shi J, Raj A. Genetic screening for single-cell variability modulators driving therapy resistance. Nature Genetics. PMID 33398196 DOI: 10.1038/s41588-020-00749-z  0.528
2020 Shaffer SM, Emert BL, Reyes Hueros RA, Cote C, Harmange G, Schaff DL, Sizemore AE, Gupte R, Torre E, Singh A, Bassett DS, Raj A. Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors. Cell. PMID 32735851 DOI: 10.1016/J.Cell.2020.07.003  0.588
2019 Shaffer S, Emert B, Torre E, Raj A. Abstract LB-050: Memory sequencing reveals heritable single cell gene expression programs associated with therapy resistance Cancer Research. 79. DOI: 10.1158/1538-7445.Am2019-Lb-050  0.627
2019 Shaffer S. D-105 Cellular memory and rare cell variability in cancer Jaids Journal of Acquired Immune Deficiency Syndromes. 81: 40. DOI: 10.1097/01.Qai.0000557966.94806.D8  0.303
2018 Wang J, Huang M, Torre E, Dueck H, Shaffer S, Murray J, Raj A, Li M, Zhang NR. Gene expression distribution deconvolution in single-cell RNA sequencing. Proceedings of the National Academy of Sciences of the United States of America. PMID 29946020 DOI: 10.1073/Pnas.1721085115  0.623
2018 Huang M, Wang J, Torre E, Dueck H, Shaffer S, Bonasio R, Murray JI, Raj A, Li M, Zhang NR. SAVER: gene expression recovery for single-cell RNA sequencing. Nature Methods. PMID 29941873 DOI: 10.1038/S41592-018-0033-Z  0.642
2018 Shaffer SM, Dunagin MC, Torborg SR, Torre EA, Emert B, Krepler C, Beqiri M, Sproesser K, Brafford PA, Xiao M, Eggan E, Anastopoulos IN, Vargas-Garcia CA, Singh A, Nathanson KL, et al. Corrigendum: Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance. Nature. PMID 29466340 DOI: 10.1038/Nature25162  0.462
2018 Torre E, Dueck H, Shaffer S, Gospocic J, Gupte R, Bonasio R, Kim J, Murray J, Raj A. Rare Cell Detection by Single-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH. Cell Systems. PMID 29454938 DOI: 10.1016/J.Cels.2018.01.014  0.667
2017 Perego M, Maurer M, Wang JX, Shaffer S, Müller AC, Parapatics K, Li L, Hristova D, Shin S, Keeney F, Liu S, Xu X, Raj A, Jensen JK, Bennett KL, et al. A slow-cycling subpopulation of melanoma cells with highly invasive properties. Oncogene. PMID 28925403 DOI: 10.1038/Onc.2017.341  0.528
2017 Shaffer SM, Dunagin MC, Torborg SR, Torre EA, Emert B, Krepler C, Beqiri M, Sproesser K, Brafford PA, Xiao M, Eggan E, Anastopoulos IN, Vargas-Garcia CA, Singh A, Nathanson KL, et al. Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance. Nature. PMID 28607484 DOI: 10.1038/Nature22794  0.554
2016 Dar RD, Shaffer SM, Singh A, Razooky BS, Simpson ML, Raj A, Weinberger LS. Transcriptional Bursting Explains the Noise-Versus-Mean Relationship in mRNA and Protein Levels. Plos One. 11: e0158298. PMID 27467384 DOI: 10.1371/Journal.Pone.0158298  0.446
2015 Shaffer SM, Joshi RP, Chambers BS, Sterken D, Biaesch AG, Gabrieli DJ, Li Y, Feemster KA, Hensley SE, Issadore D, Raj A. Multiplexed detection of viral infections using rapid in situ RNA analysis on a chip. Lab On a Chip. PMID 26113495 DOI: 10.1039/C5Lc00459D  0.625
2013 Shaffer SM, Wu MT, Levesque MJ, Raj A. Turbo FISH: a method for rapid single molecule RNA FISH. Plos One. 8: e75120. PMID 24066168 DOI: 10.1371/Journal.Pone.0075120  0.642
Show low-probability matches.