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Status |
Public on Apr 14, 2020 |
Title |
Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation |
Organism |
Mus musculus |
Experiment type |
Expression profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing Other
|
Summary |
We analyzed the impact of CTCFL and CTCF-CTCFL fusion proteins in the presence and absence of CTCF to obtain insight into the individual functional contributions of the zinc finger and N/C terminal domains
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Overall design |
ChIP seq, RNA seq, HiC
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Contributor(s) |
Skok JA, Nishana M, Rodriguez-Hernaez J |
Citation(s) |
32393311 |
NIH grant(s) |
Grant ID |
Grant title |
Affiliation |
Name |
R35 GM122515 |
Mechanisms Underlying the Control of Recombination and Gene Regulation |
NEW YORK UNIVERSITY SCHOOL OF MEDICINE |
Jane Amanda Skok |
P01 CA229086 |
The impact of changes in chromatin architecture on cancer phenotypes and tumor progression |
NEW YORK UNIVERSITY SCHOOL OF MEDICINE |
Jane Amanda Skok |
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Submission date |
Nov 13, 2019 |
Last update date |
May 26, 2020 |
Contact name |
Nishana Mayilaadumveettil |
E-mail(s) |
Nishana.mayilaadumveettil@nyumc.org
|
Phone |
2122630503
|
Organization name |
NYU Langone health
|
Department |
Pathology
|
Lab |
Skoklab
|
Street address |
31st Street & East River DR, Receiving Department BLDG Smilow Floor 03, RM 307 (Jane Skok Laboratory)
|
City |
New York |
State/province |
New York |
ZIP/Postal code |
10016 |
Country |
USA |
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Platforms (2) |
GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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Samples (122)
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Relations |
BioProject |
PRJNA589339 |
SRA |
SRP229756 |
Supplementary file |
Size |
Download |
File type/resource |
GSE140363_B.D_merge.bw |
24.1 Mb |
(ftp)(http) |
BW |
GSE140363_B.ID_merge.bw |
19.6 Mb |
(ftp)(http) |
BW |
GSE140363_B.I_merge.bw |
23.0 Mb |
(ftp)(http) |
BW |
GSE140363_B.UI_merge.bw |
22.0 Mb |
(ftp)(http) |
BW |
GSE140363_BCB-2i-D_merge-RNA_seq.bw |
15.9 Mb |
(ftp)(http) |
BW |
GSE140363_BCB-2i-ID_merge-RNA_seq.bw |
12.4 Mb |
(ftp)(http) |
BW |
GSE140363_BCB-2i-I_merge-RNA_seq.bw |
14.6 Mb |
(ftp)(http) |
BW |
GSE140363_BCB-2i-UI_merge-RNA_seq.bw |
16.2 Mb |
(ftp)(http) |
BW |
GSE140363_C.D_merge.bw |
27.4 Mb |
(ftp)(http) |
BW |
GSE140363_C.ID_merge.bw |
25.1 Mb |
(ftp)(http) |
BW |
GSE140363_C.I_merge.bw |
29.4 Mb |
(ftp)(http) |
BW |
GSE140363_C.UI_merge.bw |
21.6 Mb |
(ftp)(http) |
BW |
GSE140363_CBC-2i-D_merge-RNA_seq.bw |
14.3 Mb |
(ftp)(http) |
BW |
GSE140363_CBC-2i-ID_merge-RNA_seq.bw |
16.0 Mb |
(ftp)(http) |
BW |
GSE140363_CBC-2i-UI_merge-RNA_seq.bw |
13.8 Mb |
(ftp)(http) |
BW |
GSE140363_RAW.tar |
13.1 Gb |
(http)(custom) |
TAR (of BED, BEDGRAPH, BROADPEAK, BW, HIC, NARROWPEAK) |
GSE140363_RNA.seq_counts.normalized.csv.gz |
2.4 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
Raw data are available in SRA |
Processed data provided as supplementary file |
Processed data are available on Series record |