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A slow-cycling subpopulation of melanoma cells with highly invasive properties.
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, Wagner SN, Somasundaram R, Herlyn M. Perego M, et al. Among authors: Shaffer S. Oncogene. 2018 Jan 18;37(3):302-312. doi: 10.1038/onc.2017.341. Epub 2017 Sep 18. Oncogene. 2018. PMID: 28925403 Free PMC article.
Rare Cell Detection by Single-Cell RNA Sequencing as Guided by Single-Molecule RNA FISH.
Torre E, Dueck H, Shaffer S, Gospocic J, Gupte R, Bonasio R, Kim J, Murray J, Raj A. Torre E, et al. Among authors: Shaffer S. Cell Syst. 2018 Feb 28;6(2):171-179.e5. doi: 10.1016/j.cels.2018.01.014. Epub 2018 Feb 14. Cell Syst. 2018. PMID: 29454938 Free PMC article.
Validation of a next-generation sequencing oncology panel optimized for low input DNA.
Sussman RT, Shaffer S, Azzato EM, DeSloover D, Farooqi MS, Meyer A, Lieberman DB, Bigdeli A, Paolillo C, Ganapathy K, Sukhadia S, Rosenbaum JN, Daber RD, Morrissette JJD. Sussman RT, et al. Among authors: Shaffer S. Cancer Genet. 2018 Dec;228-229:55-63. doi: 10.1016/j.cancergen.2018.08.004. Epub 2018 Sep 19. Cancer Genet. 2018. PMID: 30553474
SAVER: gene expression recovery for single-cell RNA sequencing.
Huang M, Wang J, Torre E, Dueck H, Shaffer S, Bonasio R, Murray JI, Raj A, Li M, Zhang NR. Huang M, et al. Among authors: Shaffer S. Nat Methods. 2018 Jul;15(7):539-542. doi: 10.1038/s41592-018-0033-z. Epub 2018 Jun 25. Nat Methods. 2018. PMID: 29941873 Free PMC article.
Gene expression distribution deconvolution in single-cell RNA sequencing.
Wang J, Huang M, Torre E, Dueck H, Shaffer S, Murray J, Raj A, Li M, Zhang NR. Wang J, et al. Among authors: Shaffer S. Proc Natl Acad Sci U S A. 2018 Jul 10;115(28):E6437-E6446. doi: 10.1073/pnas.1721085115. Epub 2018 Jun 26. Proc Natl Acad Sci U S A. 2018. PMID: 29946020 Free PMC article.
Single-cell RNA sequencing (scRNA-seq) enables the quantification of each gene's expression distribution across cells, thus allowing the assessment of the dispersion, nonzero fraction, and other aspects of its distribution beyond the mean. ...DESCEND's noise model and estimation accuracy are further evaluated through comparisons to RNA FISH data, through data splitting and simulations and through its effectiveness in removing known batch effects. ...
Single-cell RNA sequencing (scRNA-seq) enables the quantification of each gene's expression distribution across cells, thus allowing …
THE EFFECT OF TOTAL SYMPATHECTOMY ON THE OCCURRENCE OF SHOCK FROM HEMORRHAGE.
Freeman NE, Shaffer SA, Schecter AE, Holling HE, Marean NE. Freeman NE, et al. Among authors: Shaffer SA. J Clin Invest. 1938 May;17(3):359-68. doi: 10.1172/JCI100960. J Clin Invest. 1938. PMID: 16694580 Free PMC article. No abstract available.
Saccharomyces cerevisiae fungemia in a multiply traumatized patient.
Manzella JP, Shaffer S, Agarwal N, Kellogg JA. Manzella JP, et al. Among authors: Shaffer S. J Trauma. 1989 Jan;29(1):129-30. doi: 10.1097/00005373-198901000-00032. J Trauma. 1989. PMID: 2642972
TooManyCells identifies and visualizes relationships of single-cell clades.
Schwartz GW, Zhou Y, Petrovic J, Fasolino M, Xu L, Shaffer SM, Pear WS, Vahedi G, Faryabi RB. Schwartz GW, et al. Among authors: Shaffer SM. Nat Methods. 2020 Apr;17(4):405-413. doi: 10.1038/s41592-020-0748-5. Epub 2020 Mar 2. Nat Methods. 2020. PMID: 32123397
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