Methods: NIH/3T3 cell line
Samples: NIH/3T3 cells
Species: Mus Musculus
Cell Type: Embryonic fibrobalst
Techniques: RNA-seq
Data processing for CellPalmSeq: The reference transcriptome was acquired from https://ensembl.org. The RNAseq reads were downloaded from the Gene Expression Omnibus (https://www.ncbi.nlm.nih.gov/geo/). For each sample, RNAseq expression values (TPM) at the gene level were obtained using kallisto (Bray et al., 2016) with the appropriate reference transcriptome by summing the TPM values of individual isoforms.
Heatmap units: Transcripts per million (TPM)
| GEO | Sample ID | Treatment | Cell_source | PMID | Year |
|---|---|---|---|---|---|
| Dataset 1: GSE66286 | GSM1618725; GSM1618726; GSM1618727 | None | ATCC (CRL-1658) | 26446258 | 2015 |
| Dataset 2: GSE92775 | GSM2437210; GSM2437211; GSM2437212 | DMSO treatment, 8 hours | ATCC | 29581585 | 2018 |
| Dataset 3: GSE94595 | GSM2479024 | None | European Collection of Animal Cell Cultures (ECACC) (Salisbury, UK) | 28775382 | 2017 |
| Dataset 4: GSE98674 | GSM2609311 | None | ATCC (CRL-1658) | 28886385 | 2017 |
| Dataset 5: GSE142732 | GSM4238342; GSM4238343 | PBS for 72h | No source provided, but did ensure authentication: NIH/3T3 cells were authenticated using the STR (short tandem repeat) test (Boster, Wuhan, China) | 32541091 | 2020 |