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Rhonda Bacher
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Design and computational analysis of single-cell RNA-sequencing experiments
R Bacher, C Kendziorski
Genome biology 17, 1-14, 2016
5402016
SCnorm: robust normalization of single-cell RNA-seq data
R Bacher, LF Chu, N Leng, AP Gasch, JA Thomson, RM Stewart, ...
Nature methods 14 (6), 584-586, 2017
3052017
Single-cell RNA sequencing reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress
AP Gasch, FB Yu, J Hose, LE Escalante, M Place, R Bacher, J Kanbar, ...
PLoS biology 15 (12), e2004050, 2017
150*2017
An in vitro human segmentation clock model derived from embryonic stem cells
LF Chu, D Mamott, Z Ni, R Bacher, C Liu, S Swanson, C Kendziorski, ...
Cell reports 28 (9), 2247-2255. e5, 2019
632019
Genetic drivers of pancreatic islet function
MP Keller, DM Gatti, KL Schueler, ME Rabaglia, DS Stapleton, P Simecek, ...
Genetics 209 (1), 335-356, 2018
572018
Species-specific developmental timing is maintained by pluripotent stem cells ex utero
C Barry, MT Schmitz, P Jiang, MP Schwartz, BM Duffin, S Swanson, ...
Developmental biology 423 (2), 101-110, 2017
542017
CD177 modulates the function and homeostasis of tumor-infiltrating regulatory T cells
MC Kim, N Borcherding, KK Ahmed, AP Voigt, A Vishwakarma, R Kolb, ...
Nature communications 12 (1), 5764, 2021
482021
Insulin-like growth factor dysregulation both preceding and following type 1 diabetes diagnosis
MR Shapiro, CH Wasserfall, SM McGrail, AL Posgai, R Bacher, A Muir, ...
Diabetes 69 (3), 413-423, 2020
422020
Single-cell RNA-seq of human myeloid-derived suppressor cells in late sepsis reveals multiple subsets with unique transcriptional responses: a pilot study
DB Darden, R Bacher, MA Brusko, P Knight, RB Hawkins, MC Cox, ...
Shock 55 (5), 587-595, 2021
412021
Human regulatory T cells from umbilical cord blood display increased repertoire diversity and lineage stability relative to adult peripheral blood
K Motwani, LD Peters, WH Vliegen, AG El-Sayed, HR Seay, MC Lopez, ...
Frontiers in immunology 11, 611, 2020
362020
Trendy: segmented regression analysis of expression dynamics in high-throughput ordered profiling experiments
R Bacher, N Leng, LF Chu, Z Ni, JA Thomson, C Kendziorski, R Stewart
BMC bioinformatics 19, 1-10, 2018
312018
Exocrine pancreatic enzymes are a serological biomarker for type 1 diabetes staging and pancreas size
JJ Ross, CH Wasserfall, R Bacher, DJ Perry, K McGrail, AL Posgai, ...
Diabetes 70 (4), 944-954, 2021
282021
Overlapping but disparate inflammatory and immunosuppressive responses to SARS-CoV-2 and bacterial sepsis: An immunological time course analysis
TJ Loftus, R Ungaro, M Dirain, PA Efron, MB Mazer, KE Remy, ...
Frontiers in immunology 12, 792448, 2021
262021
A novel single cell RNA-seq analysis of non-myeloid circulating cells in late sepsis
DB Darden, X Dong, MA Brusko, L Kelly, B Fenner, JC Rincon, ML Dirain, ...
Frontiers in Immunology 12, 696536, 2021
262021
TCR+/BCR+ dual-expressing cells and their associated public BCR clonotype are not enriched in type 1 diabetes
AS Japp, W Meng, AM Rosenfeld, DJ Perry, P Thirawatananond, ...
Cell 184 (3), 827-839. e14, 2021
212021
Identification of direct transcriptional targets of NFATC2 that promote β cell proliferation
SP Simonett, S Shin, JA Herring, R Bacher, LA Smith, C Dong, ...
The Journal of clinical investigation 131 (21), 2021
162021
Normalization by distributional resampling of high throughput single-cell RNA-sequencing data
J Brown, Z Ni, C Mohanty, R Bacher, C Kendziorski
Bioinformatics 37 (22), 4123-4128, 2021
152021
Automated minute scale RNA-seq of pluripotent stem cell differentiation reveals early divergence of human and mouse gene expression kinetics
C Barry, MT Schmitz, C Argus, JM Bolin, MD Probasco, N Leng, BM Duffin, ...
PLOS Computational Biology 15 (12), e1007543, 2019
142019
Genetic composition and autoantibody titers model the probability of detecting C-peptide following type 1 diabetes diagnosis
MKD Williams, R Bacher, DJ Perry, CR Grace, KM McGrail, AL Posgai, ...
Diabetes 70 (4), 932-943, 2021
132021
Evaluation of a multivalent transcriptomic metric for diagnosing surgical sepsis and estimating mortality among critically ill patients
SC Brakenridge, UI Chen, T Loftus, R Ungaro, M Dirain, A Kerr, L Zhong, ...
JAMA Network Open 5 (7), e2221520-e2221520, 2022
122022
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