human lung cancer cell line pc9  (Nissui Pharmaceutical)

Journal: Scientific Data

Article Title: A single cell RNAseq benchmark experiment embedding “controlled” cancer heterogeneity

doi: 10.1038/s41597-024-03002-y

Figure Lengend Snippet: Cellranger statistics.

Article Snippet: PC9 (CSC-C4619J) human lung cancer cell line was purchased from Creative Bioarray; DV90 (ACC 307) and HCC78 (ACC 563) human lung cancer cell lines were provided from DSMZ Leibniz Institute.

Techniques:

Journal: Scientific Data

Article Title: A single cell RNAseq benchmark experiment embedding “controlled” cancer heterogeneity

doi: 10.1038/s41597-024-03002-y

Figure Lengend Snippet: Quality control of the cells. Low quality cells are characterised by having a low number of genes depicted as present, associated with low ribosomal content and high mitochondrial content. ( A ) A549, ( B ) CCL-185-IG, ( C ) CRL5868, ( D ) DV90, ( E ) HCC78, ( F ) HTB178, ( G ) PC9.

Article Snippet: PC9 (CSC-C4619J) human lung cancer cell line was purchased from Creative Bioarray; DV90 (ACC 307) and HCC78 (ACC 563) human lung cancer cell lines were provided from DSMZ Leibniz Institute.

Techniques: Control

Journal: Nature communications

Article Title: A pan-CRISPR analysis of mammalian cell specificity identifies ultra-compact sgRNA subsets for genome-scale experiments.

doi: 10.1038/s41467-022-28045-w

Figure Lengend Snippet: Fig. 6 Direct experimental validation of lossy compression sets. a Two separate pooled screens were performed in a cell line (PC9) that was not included in model training and validation. Experiment 1 was the full Brunello library. A 21-day dropout experiment was performed in PC9 cells. Measurements on 18,114 genes were direct and form the gold standard. The L200 can be computationally extracted from the full screen and compared to these gold-standard measurements. A new L200 standalone library of 800 guides targeting 200 genes was cloned. This library can be used to perform a small-scale lossy compression experiment. The data can then be compared to the gold standard. b Correlations of inferred vs measured CERES scores for both screens in (a) and a comparison of the predictions between the standalone sets and the computationally extracted L200 set in the Brunello library. c A Venn diagram describes the overlap in “Hits” in the 500 most differentially required genes for growth in PC9 cells. Both of the lossy compression screens from (a) and the gold-standard (measured) data are compared. Source data are provided as a Source Data file.

Article Snippet: The titer of the viral library was measured with a test infection of PC9 cells (ATCC CRL-11350) 12-well plates.

Techniques: Biomarker Discovery, Clone Assay, Comparison