GSM7000686: mESCs NELFb, 28 -- 30 mins HS at 42 with pre-treatment 30... - SRA

SRX19205941: GSM7000686: mESCs NELFb, 28 -- 30 mins HS at 42 with pre-treatment 30 mins of dTAG; Mus musculus; OTHER
1 ILLUMINA (NextSeq 500) run: 32.8M spots, 9.8G bases, 4.2Gb downloads

External Id: GSM7000686_r1

Submitted by: Danko and Lis labs, Molecular Biology and Genetics, Cornell University

Study: Pol II pausing is a milestone on the road to complex animals

PRJNA929029 • SRP419683 • All experiments • All runs

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PRO-seq experiments in multiple organisms. Also, PRO-seq experiment of Nelfb and Nelfe degron mESC in serum/LIF with or without dTAG-13. Overall design: We used Precision Run-On and Sequencing (PRO-seq) to study transcription in 20 extant organisms that represent very diverse branches on the tree of life, including multiple species near the base of the Metazoa phylogeny and the transition between plants and animals. We also used PRO-seq to study mESCs after degrading NELF-B or NELF-E.

Sample: mESCs NELFb, 28 -- 30 mins HS at 42 with pre-treatment 30 mins of dTAG

SAMN32949447 • SRS16614701 • All experiments • All runs

Organism: Mus musculus

Library:

Name: GSM7000686

Instrument: NextSeq 500

Strategy: OTHER

Source: TRANSCRIPTOMIC

Selection: other

Layout: PAIRED

Construction protocol: RNA extraction, run-on, and library preparation were executed according to “Mahat, D. B. et al. Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq). Nat. Protoc. 11, 1455–1476 (2016).” (PMID: 27442863). Library prep was performed using Illumina custom adapters: Reverse 3' RNA adapter (/5Phos/NNNNNNGAUCGUCGGACUGUAGAACUCUGAAC/3InvdT) and Reverse 5' RNA Adapter (5'-CCUUGGCACCCGAGAAUUCCA-3').

Runs: 1 run, 32.8M spots, 9.8G bases, 4.2Gb

Run	# of Spots	# of Bases	Size	Published
SRR23260622	32,812,438	9.8G	4.2Gb	2024-02-05

ID:: 26407936

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