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Sample GSM4012549 Query DataSets for GSM4012549
Status Public on Oct 01, 2019
Title E64_S16_L008_R1_001
Sample type SRA
 
Source name tissue sample from patient with endometriosis
Organism Homo sapiens
Characteristics subject status: patient with endometriosis
tissue: endometrial samples and lesions
Extracted molecule polyA RNA
Extraction protocol Tissue specimens were immediately stabilized in RNAlater (Qiagen, Germany) and then stored at -70 °C. RNA extraction was performed immediately before the preparation of sequencing libraries using Direct-zol™ RNA MiniPrep (Zymo Research) with TRI Reagent (MRC) following the manufacturer’s protocol.
KAPA RNA Hyper with RiboErase (KAPA Biosystem) Kit was used for depletion of ribosomal RNA and library preparation.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Data processing RNA sequencing FASTQ files were processed with STAR aligner30 in ‘GeneCounts’ mode with the Ensembl human transcriptome annotation (Build version GRCh38 and transcript annotation GRCh38.89).
Genome_build: GRCh38
Supplementary_files_format_and_content: Read counts table generated by merging of STAR output. Ensembl gene IDs were converted to HGNC gene symbols using Complete HGNC dataset (https://www.genenames.org, database version of July 13, 2017). In total, read counts values were established for 37233 annotated genes with corresponding HGNC identifiers.
 
Submission date Aug 07, 2019
Last update date Oct 01, 2019
Contact name Daniil Nikitin
E-mail(s) danya.nikitin.orel@gmail.com
Phone 89295743391
Organization name Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
Street address Miklucho-Maklaya
City Moscow
ZIP/Postal code 117198
Country Russia
 
Platform ID GPL21290
Series (1)
GSE135485 Gene expression signature of endometrial samples from women with and without endometriosis.
Relations
BioSample SAMN12513034
SRA SRX6664966

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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