ccle rnaseq gene expression (rpkm) database (Broad Institute Inc)
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Broad Institute Inc
ccle rnaseq gene expression (rpkm) database
Table S1 ). B , 4 genes of interest whose levels (RPKM) are commonly significantly ( p < 0.05) upregulated in resistant cell lines. Note that MCL1 levels are not different. C , lysates of the indicated 8 cell lines were immunoblotted for the indicated proteins with relative signal indicated. Representative results of three independent experiments. Original images are presented in Fig. S2 . " width="250" height="auto" />
Ccle Rnaseq Gene Expression (Rpkm) Database, supplied by Broad Institute Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Table S1 ). B , 4 genes of interest whose levels Ccle Rnaseq Gene Expression (Rpkm) Database, supplied by Broad Institute Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/rna-seq+database/ccle+rnaseq+gene+expression++rpkm++database/pmc11208921-227-2-23
Average 90 stars, based on 1 article reviews
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2026-11
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1) Product Images from "Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells"
Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells
Journal: The Journal of Biological Chemistry
doi: 10.1016/j.jbc.2024.107375
Table S1 ). B , 4 genes of interest whose levels (RPKM) are commonly significantly ( p < 0.05) upregulated in resistant cell lines. Note that MCL1 levels are not different. C , lysates of the indicated 8 cell lines were immunoblotted for the indicated proteins with relative signal indicated. Representative results of three independent experiments. Original images are presented in Figure Legend Snippet: Identification of commonly upregulated genes in S63845 resistant TNBC cell lines. A , volcano plot analysis of genes differentially expressed in resistant vs. sensitive cell lines identified the top 100 commonly upregulated genes in resistant cell lines (gene list seen in
Techniques Used:
Figure Legend Snippet: A 4 gene signature (GS) correlates with AZD5991 sensitivity and MCL-1 dependency in TNBC cell lines. A , analysis of gene expression correlation with TIMER software in 139 TNBC tumors (TCGA) showed that the 4 genes positively correlate with each other. B , 18 TNBC cell lines from GDSC are divided into AZD5991 resistant ( green ) and sensitive ( yellow ) groups. mRNA levels (RPKM) of AXL, ETS1, IL6, and EFEMP1 in all cell lines were extracted from CCLE RNAseq database. The median level of each gene is calculated and listed on top. Gene levels above the median is marked in red and scored 1 and below median is scored 0. The sum of the 4 gene scores is listed on right . C , correlation of GS scores with AZD5991 sensitivity was analyzed with ROC curve with sensitive cells defined as event 1. The results showed a significant correlation ( p = 0.002) with an ROC area 0.95 (ROC area 1.0 indicates perfect correlation). D, 13 TNBC cell lines with MCL-1 CRISPR (DepMap public 23Q2) are divided into MCL-1 dependent ( green ) and independent ( yellow ) groups based on their Chromos scores. Gene scores are calculated as described in B. Correlation of GS scores with MCL-1 dependency was analyzed with ROC curve ( E ). The results showed a significant correlation ( p = 0.04) with a ROC area 0.79).
Techniques Used: Gene Expression, Software, CRISPR
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Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . CRISPR:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Expressing:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Modification:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Immunohistochemistry:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Western Blot:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Control:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Knockdown:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Over Expression:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . Proliferation Assay:Article Title: Novel markers of MCL1 inhibitor sensitivity in triple-negative breast cancer cells Article Snippet: Briefly, the CCLE RNAseq gene expression (RPKM) database ( ) for 1019 cell lines (CCLE RNAseq genes rpkm 20180929.gct.gz) was downloaded from the Broad Institute CCLE database. Article Title: Evaluating the therapeutic potential of ADAR1 inhibition for triple-negative breast cancer Article Snippet: CCLE RNAseq count data (CCLE_RNAseq_genes_counts_20180929.gct.gz, CCLE_RNAseq_rsem_transcripts_tpm_20180929.txt.gz) were obtained from the Broad Institute Cancer Cell Line Encyclopedia and is available online at https://portals.broadinstitute.org/ccle/data . |