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Sydney Shaffer
Sydney Shaffer
Assistant Professor of Pathology and Bioengineering, University of Pennsylvania
Verified email at pennmedicine.upenn.edu - Homepage
Title
Cited by
Cited by
Year
Rare cell variability and drug-induced reprogramming as a mode of cancer drug resistance
SM Shaffer, MC Dunagin, SR Torborg, EA Torre, B Emert, C Krepler, ...
Nature 546 (7658), 431-435, 2017
7862017
SAVER: gene expression recovery for single-cell RNA sequencing
M Huang, J Wang, E Torre, H Dueck, S Shaffer, R Bonasio, JI Murray, ...
Nature methods 15 (7), 539-542, 2018
4442018
Gene expression distribution deconvolution in single-cell RNA sequencing
J Wang, M Huang, E Torre, H Dueck, S Shaffer, J Murray, A Raj, M Li, ...
Proceedings of the National Academy of Sciences 115 (28), E6437-E6446, 2018
1032018
Turbo FISH: a method for rapid single molecule RNA FISH
SM Shaffer, MT Wu, MJ Levesque, A Raj
PloS one 8 (9), e75120, 2013
1002013
Rare cell detection by single-cell RNA sequencing as guided by single-molecule RNA FISH
E Torre, H Dueck, S Shaffer, J Gospocic, R Gupte, R Bonasio, J Kim, ...
Cell systems 6 (2), 171-179. e5, 2018
932018
Memory sequencing reveals heritable single-cell gene expression programs associated with distinct cellular behaviors
SM Shaffer, BL Emert, RAR Hueros, C Cote, G Harmange, DL Schaff, ...
Cell 182 (4), 947-959. e17, 2020
732020
A slow-cycling subpopulation of melanoma cells with highly invasive properties
M Perego, M Maurer, JX Wang, S Shaffer, AC Müller, K Parapatics, L Li, ...
Oncogene 37 (3), 302-312, 2018
592018
Transcriptional bursting explains the noise–versus–mean relationship in mRNA and protein levels
RD Dar, SM Shaffer, A Singh, BS Razooky, ML Simpson, A Raj, ...
PloS one 11 (7), e0158298, 2016
582016
Islet transplantation in type I diabetes mellitus
NA Jamiolkowski RM, Guo LY, Li YR, Shaffer SM
Yale Journal of Biology and Medicine 85, 37-43, 2012
552012
TooManyCells identifies and visualizes relationships of single-cell clades
GW Schwartz, Y Zhou, J Petrovic, M Fasolino, L Xu, SM Shaffer, WS Pear, ...
Nature methods 17 (4), 405-413, 2020
432020
Variability within rare cell states enables multiple paths toward drug resistance
BL Emert, CJ Cote, EA Torre, IP Dardani, CL Jiang, N Jain, SM Shaffer, ...
Nature biotechnology 39 (7), 865-876, 2021
382021
Genetic screening for single-cell variability modulators driving therapy resistance
EA Torre, E Arai, S Bayatpour, CL Jiang, LE Beck, BL Emert, SM Shaffer, ...
Nature genetics 53 (1), 76-85, 2021
292021
Multiplexed detection of viral infections using rapid in situ RNA analysis on a chip
SM Shaffer, RP Joshi, BS Chambers, D Sterken, AG Biaesch, DJ Gabrieli, ...
Lab on a Chip 15 (15), 3170-3182, 2015
232015
Memory sequencing reveals heritable single cell gene expression programs associated with distinct cellular behaviors
SM Shaffer, BL Emert, R Reyes-Hueros, C Coté, G Harmange, ...
bioRxiv, 379016, 2019
152019
A comparison between single cell RNA sequencing and single molecule RNA FISH for rare cell analysis
E Torre, H Dueck, S Shaffer, J Gospocic, R Gupte, R Bonasio, J Kim, ...
bioRxiv, 138289, 2017
72017
Validation of a next-generation sequencing oncology panel optimized for low input DNA
RT Sussman, S Shaffer, EM Azzato, D DeSloover, MS Farooqi, A Meyer, ...
Cancer Genetics 228, 55-63, 2018
52018
Retrospective identification of rare cell populations underlying drug resistance connects molecular variability with cell fate
BL Emert, C Coté, EA Torre, IP Dardani, CL Jiang, N Jain, SM Shaffer, ...
bioRxiv 2020, 2020
42020
SAVER: Gene expression recovery for UMI-based single cell RNA sequencing
M Huang, J Wang, E Torre, H Dueck, S Shaffer, R Bonasio, J Murray, ...
bioRxiv, 138677, 2018
42018
Subcellular Detection of SARS-CoV-2 RNA in Human Tissue Reveals Distinct Localization in Alveolar Type 2 Pneumocytes and Alveolar Macrophages
KK Acheampong, DL Schaff, BL Emert, J Lake, S Reffsin, EK Shea, ...
Mbio 13 (1), e03751-21, 2022
32022
Multiplexed detection of SARS-CoV-2 genomic and subgenomic RNA using in situ hybridization
KK Acheampong, DL Schaff, BL Emert, J Lake, S Reffsin, EK Shea, ...
BioRxiv, 2021
22021
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