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Sample GSM6782950 Query DataSets for GSM6782950
Status Public on Dec 04, 2022
Title long read RNA-seq from endothelial cell of umbilical vein (ENCLB149WJH)
Sample type SRA
 
Source name Homo sapiens newborn endothelial of umbilical vein primary cell
Organism Homo sapiens
Characteristics cell_type: endothelial cell of umbilical vein
biomaterial_type: primary cell
biosample encode accession: ENCBS023JCN (SAMN22785989)
Sex: not collected
dev stage: newborn
age: not collected
donor_id: ENCDO000AAS
lab: Mats Ljungman, UMichigan
source: Lonza
health state: unknown
link: ENCBS023JCN at ENCODE; https://www.encodeproject.org/ENCBS023JCN/
link: Derived from ENCODE donor ENCDO000AAS; https://www.encodeproject.org/ENCDO000AAS/
Extracted molecule total RNA
Extraction protocol general protocol: https://www.encodeproject.org/documents/6d583a1d-d692-4511-b13b-c051822d861c/@@download/attachment/ENCODE%20Long%20Read%20RNA-Seq%20Analysis%20Pipeline%20v3.2%20%28Human%29.pdf, general protocol: https://www.encodeproject.org/documents/3baa46d2-cb88-4608-8877-70596d200489/@@download/attachment/ENCODE_longread_wetlab_protocolv3.pdf
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Sequel II
 
Description https://www.encodeproject.org/experiments/ENCSR687RWI/
***************
biological replicate number: 2
technical replicate number: 1
description: ENC4_505, ENC4_506 HUVEC rep1 primary human umbilical vein endothelial cell
experiment encode accession: ENCSR687RWI
assay title: long read RNA-seq
assembly: GRCh38
encode release date: 2021-12-13
lab: Ali Mortazavi, UCI
library encode accession: ENCLB149WJH
spikeins used: Ambion mix 1 spike-ins, Lexogen set 4 reference spike-ins used for long-read RNA-seq, including the longSIRVs and SIRVs. Note that this does NOT contain the ERCCs that are a part of this mix.
nucleic acid starting quantity: 2
nucleic acid starting quantity units: µg
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Dec 03, 2022
Last update date Dec 06, 2022
Contact name ENCODE DCC
E-mail(s) encode-help@lists.stanford.edu
Organization name ENCODE DCC
Street address 300 Pasteur Dr
City Stanford
State/province CA
ZIP/Postal code 94305-5120
Country USA
 
Platform ID GPL28352
Series (1)
GSE219635 long read RNA-seq from endothelial cell of umbilical vein (ENCSR687RWI)
Relations
BioSample SAMN22785989
SRA SRX18485810

Supplementary file Size Download File type/resource
GSM6782950_ENCFF294ACH_transcriptome_annotations_GRCh38.gtf.gz 62.3 Mb (ftp)(http) GTF
GSM6782950_ENCFF997SQD_transcript_quantifications_GRCh38.tsv.gz 3.7 Mb (ftp)(http) TSV
GSM6782950_ENCLB149WJH_README.txt.gz 537 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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