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| Status |
Public on Sep 15, 2015 |
| Title |
Pt24-baseline |
| Sample type |
SRA |
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| Source name |
tumor biopsy
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| Organism |
Homo sapiens |
| Characteristics |
cell type: melanoma
mapki sensitivity: sensitive
mapki treatment: none
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
Poly A tail enriching, paired end RNAseq
TruSeq RNA Sample Preparation Kit v2
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
Patient 24 melanoma, pre MAPKi treatment, 1st biopsy
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| Data processing |
FASTQ files were mapped by Tophat2
Tophat BAMs were quantified and normalized using Cuffnorm, DGE were called by cuffdiff
Genome_build: hg19
Supplementary_files_format_and_content: The normalized expression levels by cuffnorm
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| Submission date |
Jan 22, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Willy Hugo |
| E-mail(s) |
hwilly@mednet.ucla.edu
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| Organization name |
UCLA
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| Department |
Medicine
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| Street address |
10833 Le Conte Ave, 52-121 CHS, Division of Dermatology
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| City |
Los Angeles |
| State/province |
California |
| ZIP/Postal code |
90095 |
| Country |
USA |
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| Platform ID |
GPL11154 |
| Series (2) |
| GSE65185 |
RNAseq changes in pre MAPKi treatment and post MAPKi resistance Melanomas |
| GSE65186 |
Non-genomic and Immune Evolution in Melanoma with Acquired MAPKi Resistance |
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| Relations |
| BioSample |
SAMN03290945 |
| SRA |
SRX849838 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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