GSM2147604: KP1-sh2-FACS_B [ATAC-seq]; Mus musculus; OTHER - SRA

SRX1753542: GSM2147604: KP1-sh2-FACS_B [ATAC-seq]; Mus musculus; OTHER
3 ILLUMINA (Illumina MiSeq) runs: 12.1M spots, 1.2G bases, 661.4Mb downloads

Submitted by: NCBI (GEO)

Study: Nfib promotes Metastasis through a Widespread Increase in Chromatin Accessibility [ATAC-seq]

PRJNA321073 • SRP074733 • All experiments • All runs

show Abstracthide Abstract

We describe Nfib as an important regulator of chromatin accessibility in Small cell lung cancer (SCLC). Overall design: ATAC seq was performed on [1] ex vivo samples from primary tumors and metastases of a mouse model for SCLC (4 samples of each plus technical replicates of 7 samples for a total of 15 samples) [2] cell lines derived from mouse models for SCLC. [3] Nfib loss of function in murine SCLC cell lines (shLuc are controls, sh2 is shRNA that knocks down Nfib) [4] Nfib gain of function in murine SCLC cell lines and human SCLC lines (empty indicates control cells, Nfib indicates cells overexpressing Nfib)

Sample: KP1-sh2-FACS_B [ATAC-seq]

SAMN04965869 • SRS1430415 • All experiments • All runs

Organism: Mus musculus

Library:

Instrument: Illumina MiSeq

Strategy: OTHER

Source: GENOMIC

Selection: other

Layout: PAIRED

Construction protocol: Cells were lysed, incubated with Tn5 transposase, and purified with Qiagen MinElute kit. Sequencing libraries were constructed using a modified version of the Illumina Nextera DNA Sample prep kit, as per Buenrostro et al. (2013).

Experiment attributes:

GEO Accession: GSM2147604

Links:

NCBI link: NCBI Entrez (gds)

Runs: 3 runs, 12.1M spots, 1.2G bases, 661.4Mb

Run	# of Spots	# of Bases	Size	Published
SRR3493623	636,294	95.4M	35.1Mb	2016-05-12
SRR3493624	3,896,826	389.7M	183Mb	2016-05-12
SRR3493625	7,599,993	760M	443.3Mb	2016-05-12

ID:: 2512552

SRA

Sequence Read Archive

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