ICAR Research Data Repository for Knowledge Management
RNAseq FKPM data from Ink4a.1, Met25, Met35, Met36, and Met38 mouse pancreatic cancer cell lines
Harvard Dataverse (Africa Rice Center, Bioversity International, CCAFS, CIAT, IFPRI, IRRI and WorldFish)
View Archive Info| Field | Value | |
| Title |
RNAseq FKPM data from Ink4a.1, Met25, Met35, Met36, and Met38 mouse pancreatic cancer cell lines
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| Identifier |
https://doi.org/10.7910/DVN/YZXVA4
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| Creator |
Dudgeon, Crissy
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| Publisher |
Harvard Dataverse
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| Description |
RNAseq FKPM values of mouse cell lines Ink4a.1, Met25, Met35, Met36, and Met38. Pipeline of data: Ink4a.1 and Met cell lines were profiled using standard RNA-seq completed by Azenta Life Sciences (formally known as Genewiz, South Plainfield, NJ). After quality check of the reads using FastQC (https://www.bioinformatics.babraham.ac.uk/projects/fastqc/), we used Salmon to quantify transcript-level expression and EdgeR to identify genes with significantly differential expression between pairs of conditions based on replicated count data from bulk RNA-seq profiling. The normalized data were applied to R package GAGE for gene-set enrichment and pathway analysis. The p-values were corrected for multiple testing using FDR.
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| Subject |
Medicine, Health and Life Sciences
pancreatic cancer metastasis syngeneic mouse model |
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| Language |
English
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| Date |
2023-10-10
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| Contributor |
Dudgeon, Crissy
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| Type |
RNAseq data of mouse pancreatic cell lines.
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