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Series GSE181392

Query DataSets for GSE181392

Status

Public on Aug 04, 2021

Title

The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation [ATAC-seq]

Sample organism

Homo sapiens

Experiment type

Third-party reanalysis
Genome binding/occupancy profiling by high throughput sequencing

Summary

A deep-learning framework interprets multi-omic data across epidermal differentiation, identifying cooperative DNA sequence rules that regulate gene modules. Massively parallel reporter analysis validates temporal dynamics and cis-regulatory logic.

Overall design

ATAC-seq (Buenrostro, Nature Methods 2013) performed on days 0-6 of keratinocyte differentiation, every 12 hours (https://www.encodeproject.org/treatment-time-series/ENCSR968JDE/).
Re-analyzed GSMs: GSM5258828; GSM5258833; GSM5258829; GSM5258831; GSM5258830; GSM5258834; GSM5258827; GSM5258832; GSM5259146; GSM5259142; GSM5259143; GSM5259149; GSM5259145; GSM5259148; GSM5259147; GSM5259144; GSM5258550; GSM5258551; GSM5258547; GSM5258542; GSM5258543; GSM5258545; GSM5258549; GSM5258544; GSM5258546; GSM5258548; GSM5259306; GSM5259303; GSM5259307; GSM5259302; GSM5259304; GSM5259305; GSM5259308; GSM5258672; GSM5258674; GSM5258680; GSM5258678; GSM5258675; GSM5258673; GSM5258677; GSM5258679; GSM5258676; GSM5258986; GSM5258988; GSM5258982; GSM5258989; GSM5258984; GSM5258985; GSM5258981; GSM5258983; GSM5258987; GSM5259288; GSM5259289; GSM5259285; GSM5259284; GSM5259292; GSM5259291; GSM5259283; GSM5259290; GSM5259286; GSM5259287; GSM5259277; GSM5259280; GSM5259278; GSM5259272; GSM5259282; GSM5259276; GSM5259273; GSM5259275; GSM5259281; GSM5259274; GSM5259279; GSM5258500; GSM5258499; GSM5258496; GSM5258497; GSM5258503; GSM5258501; GSM5258495; GSM5258498; GSM5258502; GSM5259046; GSM5259052; GSM5259047; GSM5259048; GSM5259053; GSM5259055; GSM5259054; GSM5259051; GSM5259049; GSM5259045; GSM5259050; GSM5259111; GSM5259112; GSM5259115; GSM5259109; GSM5259116; GSM5259110; GSM5259114; GSM5259118; GSM5259117; GSM5259113; GSM5258968; GSM5258967; GSM5258966; GSM5258974; GSM5258973; GSM5258971; GSM5258965; GSM5258970; GSM5258969; GSM5258972; GSM5258649; GSM5258651; GSM5258646; GSM5258652; GSM5258648; GSM5258644; GSM5258650; GSM5258653; GSM5258645; GSM5258647

Contributor(s)

Kim DS, Risca V, Kathiria A

Citation(s)

34650237

Submission date

Aug 03, 2021

Last update date

Nov 16, 2021

Contact name

Daniel Sunwook Kim

E-mail(s)

danielskim@stanford.edu

Organization name

Stanford School of Medicine

Street address

269 Campus Drive, CCSR 2150

City

Stanford

State/province

ZIP/Postal code

94305

Country

USA

This SubSeries is part of SuperSeries:

GSE181416

The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation

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BioProject

Download family	Format
SOFT formatted family file(s)	SOFT
MINiML formatted family file(s)	MINiML
Series Matrix File(s)	TXT

Supplementary file	Size	Download	File type/resource
GSE181392_processed_data.tar.gz	68.4 Gb	(ftp)(http)	TAR
Processed data are available on Series record