Functional Characterization Experiment summary for ENCSR208DGH

doi:10.17989/ENCSR208DGH

Summary

Status
released
Assay
MPRA
Biosample summary
Homo sapiens HepG2 genetically modified using transient transfection
Biosample Type
cell line
Replication type
isogenic
Description
Elements cloned into the ORI (STARR-seq lacking a minimal promoter) vector, with both elements and barcodes cloned into the 3' UTR. Tested in the same batch as ORI_b2, using primers around the full element and barcode to circumvent the possible detection of artifacts emerging from transcription initiation internal to the upstream element.
Nucleic acid type
RNA
Size range
10-20
Fragmentation methods
chemical (Illumina TruSeq)
Controls
Elements references
Elements mapping
ENCSR638VYO

Attribution

ENCODE4 project
Lab
Nadav Ahituv, UCSF
Award
UM1HG009408 (Jay Shendure, UW)
Project
ENCODE
Aliases
nadav-ahituv:ORI_full-mpra-RNA
Date submitted
December 2, 2020
Date released
February 19, 2021

Isogenic replicates

Isogenic replicate
Technical replicate
Summary
Biosample
Modifications
Library
11HepG2 cell line genetically modified (insertion) using transient transfectionENCBS939AOVENCGM517RIKENCLB987IYU
31HepG2 cell line genetically modified (insertion) using transient transfectionENCBS420FNDENCGM517RIKENCLB218THX
21HepG2 cell line genetically modified (insertion) using transient transfectionENCBS236XVSENCGM517RIKENCLB316CYF