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| Status |
Public on Feb 05, 2023 |
| Title |
Transcriptomics analysis of heart, kidney, and liver tissues from 58 Collaborative Cross strains |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We report transcriptomic profiling from bulk heart, kidney, and liver tissues for 58 strains of the inbred mouse Collaborative Cross (CC). Each strain is represented by a male/female pair. Reads were first aligned to the pooled transcriptomes of the eight founder strains of the CC and then total gene counts were quantified using the EMASE and GBRS software tools. Total read counts can be further normalized for use in differential gene expression analysis, expression quantitative trait locus (eQTL) analysis, and integrative analyses with other -omic data sets measured on the same samples, including proteomics and phosphoproteomics.
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| Overall design |
RNA profiling of heart, kidney, and liver bulk tissues of male/female pairs from 58 Collaborative Cross (CC) mouse strains
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| Contributor(s) |
Keele GR, Zhang T, Munger SC, Pardo-Manuel de Villena F, Ferris M, Paulo JA, Gygi SP, Churchill GA |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Mar 29, 2022 |
| Last update date |
Feb 05, 2023 |
| Contact name |
Carol Bult |
| E-mail(s) |
Carol.Bult@jax.org
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| Phone |
207-288-6000
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| Organization name |
The Jackson Laboratory
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| Lab |
The Bult Lab
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| Street address |
600 Main St
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| City |
Bar Harbor |
| State/province |
ME |
| ZIP/Postal code |
04609 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (348)
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| Relations |
| BioProject |
PRJNA821207 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE199702_heart_total_gene_counts.txt.gz |
7.4 Mb |
(ftp)(http) |
TXT |
| GSE199702_kidney_total_gene_counts.txt.gz |
8.5 Mb |
(ftp)(http) |
TXT |
| GSE199702_liver_total_gene_counts.txt.gz |
7.3 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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