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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 28, 2016 |
| Title |
DMSO sample 3 |
| Sample type |
SRA |
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| Source name |
HeLa cells
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| Organism |
Homo sapiens |
| Characteristics |
cell line: HeLa
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| Extracted molecule |
total RNA |
| Extraction protocol |
NucleoSpin miRNA (Macherey-Nagel)
ribosomal depletion with RiboZero, directional RNA-seq library preparation, and 12 cycle amplification using LongAmp (New England BioLabs) and indexed primers (Integrated DNA Technologies)
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
FastQC
tophat2 v1.2 data analysis pipeline at HMS research computing
tophat vs hg19
cufflinks
cuffmerge
cuffdiff
Genome_build: hg19
Supplementary_files_format_and_content: text delimited file containing FPKM values for each sample, fold-changes with p-values, and sequecinging status
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| Submission date |
Nov 20, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Christian Munch |
| E-mail(s) |
christian_munch@hms.harvard.edu
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| Organization name |
Harvard Medical School
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| Department |
Cell Biology
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| Street address |
240 Longwood Avenue
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| City |
Boston |
| ZIP/Postal code |
02115 |
| Country |
USA |
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| Platform ID |
GPL18573 |
| Series (2) |
| GSE75247 |
Mitochondrial unfolded protein response controls matrix pre-RNA processing and translation |
| GSE75411 |
Mitochondrial unfolded protein response controls matrix pre-RNA processing and translation |
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| Relations |
| BioSample |
SAMN04283927 |
| SRA |
SRX1441549 |
| 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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