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| Status |
Public on Jun 18, 2020 |
| Title |
rJDS017 |
| Sample type |
SRA |
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| Source name |
Melanoma tumour
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| Organism |
Homo sapiens |
| Characteristics |
tissue: skin
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| Extracted molecule |
total RNA |
| Extraction protocol |
For PolyA mRNA capture system, RNA was extracted using TRIzol (Invitrogen) according to manufacture instructions. RNA was subsiquently used for PolyA capture.
Strand specific library preparation (KAPA stranded mRNA seq kit)
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
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| Data processing |
FastQ files were mapped to the reference genome (hg38) using STAR (version 2.4.2).
Counts were called by HTSeq (version 0.11.0)
Genome_build: hg38
Supplementary_files_format_and_content: Raw read files contain raw read counts for each sample
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| Submission date |
Jul 01, 2019 |
| Last update date |
Jun 19, 2020 |
| Contact name |
Jieyi Xiong |
| Organization name |
VIB-KULeuven Center for Cancer Biology
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| Street address |
Herestraat 49, box 912
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| City |
Leuven |
| ZIP/Postal code |
3000 |
| Country |
Belgium |
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| Platform ID |
GPL20301 |
| Series (2) |
| GSE85353 |
DNA methylation repels binding of hypoxia-inducible transcription factors to maintain tumour immunotolerance [RNA] |
| GSE85356 |
DNA methylation repels binding of hypoxia-inducible transcription factors to maintain tumour immunotolerance |
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| Relations |
| BioSample |
SAMN12172802 |
| SRA |
SRX6385437 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3912776_rJDS017.count.tsv.gz |
134.2 Kb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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