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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
283
ChIP-seq
182
total RNA-seq
62
ATAC-seq
9
pCHi-C
6
Hi-C
6
MeRIP-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
3
STARR-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
283
DNA binding
186
Transcription
65
DNA accessibility
6
3D chromatin structure
Target of assay
120
histone
120
histone modification
107
transcription factor
60
narrow histone mark
59
broad histone mark
57
control
20
RNA binding protein
12
chromatin remodeller
7
recombinant protein
3
nucleotide modification
Date released
152
May, 2021
68
August, 2017
55
August, 2021
54
February, 2021
39
February, 2018
38
October, 2019
28
December, 2017
27
December, 2018
22
February, 2023
21
November, 2019
19
March, 2020
18
January, 2019
15
November, 2018
6
November, 2020
5
January, 2018
2
December, 2019
2
March, 2023
1
August, 2018
1
October, 2022
Available data
425
bam
378
bigWig
202
bed narrowPeak
186
fastq
182
tsv
65
bigBed narrowPeak
42
tagAlign
27
bed bed3+
8
bedpe bed3+
7
bed bedgraph
5
bed bed3
5
hic
4
txt
2
bed broadPeak
2
bigBed broadPeak
2
ibed
1
hdf5
Organism
569
Homo sapiens
Biosample type
2103
tissue
1061
primary cell
378
in vitro differentiated cells
195
cell line
9
stem cell
Organ
liver
103
epithelium
97
connective tissue
95
pancreas
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
562
AMP
9
T1D
2
community
Genome assembly (visualization)
418
hg19
382
GRCh38
4
hg18
Lab
503
AMP-T2D consortium
52
Kyle Gaulton, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
2
Anna Gloyn, Oxford
Audit category:
207
inconsistent ontology term
2
audit script error
1
inconsistent control
Audit category:
6
missing controlled_by
Audit category:
17
inconsistent control read length
1
inconsistent assembly
assay_title!
CRISPR RNA-seq
organ_slims!
heart
liver
BIOSAMPLE
ASSAY
573 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
STARR-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
in vitro differentiated cells
adipocyte
67
5
8
1
1
cardiomyocytes
3
59
embryonic stem cell
40
7
6
1
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 29 more…
cell line
EndoC_BH1
15
33
19
1
6
2
3
2
1
GM12878
60
1
Panc1
13
1
1
H1-hESC
8
RCC 7860 HIF1a re-expression
4
1
+ See 12 more…
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