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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
57
ChIP-seq
27
ATAC-seq
14
total RNA-seq
10
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
GRO-seq
2
Capture-C
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
57
DNA binding
27
DNA accessibility
18
Transcription
8
3D chromatin structure
1
DNA sequencing
Target of assay
24
histone
24
histone modification
24
transcription factor
12
broad histone mark
12
control
12
narrow histone mark
6
RNA binding protein
3
nucleotide modification
Date released
63
May, 2021
37
August, 2021
12
March, 2020
6
November, 2020
5
January, 2018
4
February, 2023
3
October, 2019
2
December, 2019
2
March, 2023
1
December, 2018
1
February, 2021
1
May, 2020
1
November, 2017
1
November, 2019
1
October, 2022
Available data
bam
720
bigWig
513
fastq
489
bed narrowPeak
369
bigBed narrowPeak
243
tsv
59
bed broadPeak
59
bigBed broadPeak
46
tagAlign
15
bed bed3+
8
bedpe bed3+
6
hic
4
txt
3
bed bedgraph
3
tar
2
ibed
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
136
Homo sapiens
Biosample type
792
tissue
453
primary cell
75
cell line
65
in vitro differentiated cells
6
stem cell
Organ
connective tissue
35
liver
29
pancreas
28
epithelium
4
kidney
1
adipose tissue
1
blood
1
bodily fluid
1
embryo
1
mammary gland
Project
138
AMP
T1D
2
community
Genome assembly (visualization)
35
hg19
4
hg18
1
GRCh38
Lab
48
AMP-T2D consortium
47
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
3
Struan F.A. Grant, CHOP
2
Anna Gloyn, Oxford
Audit category:
40
inconsistent ontology term
2
audit script error
Audit category:
1
inconsistent assembly
award.project!
T1D
files.file_type!
bam
organ_slims!
connective tissue
BIOSAMPLE
ASSAY
140 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
GRO-seq
Capture-C
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
19
9
2
2
2
1
EndoC_BH1
18
1
6
2
1
EndoC-BH1
1
1
HEK293T
2
GM12878
1
+ See 7 more…
in vitro differentiated cells
embryonic stem cell
37
6
5
1
cardiomyocytes (cardiac muscle cell)
2
2
2
lymphocyte of B lineage (iPSC)
1
1
Posterior foregut
1
Progenitor cell of Hypothalamus (neural progenitor cell)
1
+ See 6 more…
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