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Series GSE212252 Query DataSets for GSE212252
Status Public on Sep 12, 2022
Title Balanced SET levels favor the correct enhancer repertoire during cell fate acquisition
Organisms Danio rerio; Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary To understand the effect of SET protein accumulation on genomic function we used different accumulating models, cells and in vivo, that we analyzed with different techinques up to the single level. SET accumulation is known to be caused by the accumulation of its direct interactor SETBP1, when mutated, the causative gene of Schinzel Giedion syndrome. SET has been shown to be able to interfere with histones acetylation, thus we wanted to investigated the functional effect on the genome function and cell fate commitment.
Overall design Genomic analysis of human cells (IPSCs, NPCs, Neurons), Zebrafish brain embryo, mouse embryonic and post natal cortex, to understand the effect of SET accumulation on genome function
Contributor(s) Zaghi M, Massimino L, Bellini E, Sessa A, Broccoli V
Citation(s) 37270547
Submission date Aug 29, 2022
Last update date Jun 15, 2023
Contact name Luca Massimino
Phone 3389039500
Organization name Ospedale San Raffaele
Department Gastroenterology
Street address Via Olgettina, 58
City Milano
State/province MI
ZIP/Postal code 20100
Country Italy
Platforms (3)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
GPL24995 Illumina NovaSeq 6000 (Danio rerio)
Samples (80)
GSM6519804 Neurons D868D Hi-C #1
GSM6519805 Neurons D868D Hi-C #2
GSM6519806 Neurons D868D Hi-C #3
BioProject PRJNA874714

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE212252_NUCLEI_EMBRYO_CRE_NEGATIVE_processed_data.tar.gz 458.3 Mb (ftp)(http) TAR
GSE212252_NUCLEI_EMBRYO_CRE_POSITIVE_processed_data.tar.gz 175.7 Mb (ftp)(http) TAR
GSE212252_NUCLEI_POST_NATAL_CRE_NEGATIVE_processed_data.tar.gz 446.0 Mb (ftp)(http) TAR
GSE212252_NUCLEI_POST_NATAL_CRE_POSITIVE_processed_data.tar.gz 533.7 Mb (ftp)(http) TAR
GSE212252_RAW.tar 12.3 Gb (http)(custom) TAR (of BROADPEAK, HIC, NARROWPEAK, TAB)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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