CyTOF analysis was performed on 34 peripheral blood mononuclear cells (PBMCs) samples from a prospective discovery cohort comprising 20 patients with NSCLC treated with PD-1 inhibitor monotherapy to perform an in-depth evaluation of the immunological profiles of PBMCs in NSCLC (Fig. 1a). A predef...
To explore precancer states during early malignancy, we evaluated tumor and normal cells in the MMTV-PyVT mouse model of luminal BC54. Mouse mammary glands were collected at 12 weeks old to capture the transition of normal ducts to cancer cells. Both normal ducts and cancer cells were recogni...
Rapid, prospective and systematic functional annotation of variants would accelerate the discovery of drug resistance mechanisms. CRISPR-based gene editing approaches such as base editing can be used to directly interpret the function of variants of unknown significance (VUS)4,5,6,7,8,9,10,11,12...
While such definitions can come to light during the discovery process, Tapestry said the pace of the case — the company wants toclose the dealthis year — doesn’t make that workable. “Defendants therefore ask, in the alternative, that the court order the FTC to respond to one interrogat...
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p value of < 0.05 with Benjamini-Hochberg (BH) multiple testing correction at 5% false-discovery rate (FDR). Gene Set Enrichment To perform the gene set enrichment analysis, GSEA software was used to derive the absolute enrichment scores using C2 curated subset (experimentally validated gene sets...
Global transcriptome and open chromatin analyses of depot-specific preadipocytes identified their gene expression signature and differential open chromatin profile. Interestingly, A-fat-specific open chromatin regions can be observed in the proximity of GF-fat genes, but not vice versa. Trial registration...
(median RFS 8 vs 27 months, and 64 vs 105 months for metastatic and non-metastatic subgroups, respectively, stratified log rank p = 0.11). Of note, the NCI TARGET cohort has a much shorter follow up than both the MGH cohort and the previously published discovery cohort, potentially ...
Bulk RNA-sequencing (RNA-seq) was used to generate whole-tissue gene expression profiles across all samples (n = 41 IBD and n = 39 non-IBD; the‘discovery cohort’). To identify sets of genes reflective of distinct biological processes, we applied weighted gene correlation network ...
Wilkerson, M.D. & Hayes, D.N. ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking.Bioinformatics26, 1572–1573 (2010). ArticleCASPubMedPubMed CentralGoogle Scholar Nilsen, G. et al. Copynumber: efficient algorithms for single- and multi-track copy number...