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Status |
Public on Jun 24, 2020 |
Title |
DistA_neg_31060 |
Sample type |
SRA |
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Source name |
Fallopian tube fragment
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Organism |
Homo sapiens |
Characteristics |
fallopian tube region: distal aldh activity: negative
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Extracted molecule |
total RNA |
Extraction protocol |
Trizol-LS Lexogen Quant-Seq
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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 |
use fastp (https://github.com/OpenGene/fastp) to trim adapter sequences and move UMI sequences align with STAR (version 2.7) 2-pass method remove duplicate reads based on UMI Apply GATK3 to correct sequencing bias use featureCounts function provided by the Rsubread R package to create a count matrix Genome_build: GRCh38 Supplementary_files_format_and_content: Count matrix of normalized counts. Each row is a gene identified by ENTREZID, each column is a sample.
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Submission date |
May 11, 2020 |
Last update date |
Jun 24, 2020 |
Contact name |
Ian Michael Rose |
E-mail(s) |
imr923@gmail.com
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Organization name |
Cornell University
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Street address |
Ithaca, NY 14850
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City |
Ithaca |
ZIP/Postal code |
14850 |
Country |
USA |
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Platform ID |
GPL18573 |
Series (1) |
GSE150283 |
WNT and inflammatory signaling distinguish human Fallopian tube epithelial cell populations |
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Relations |
BioSample |
SAMN14888037 |
SRA |
SRX8321708 |
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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