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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
742
ChIP-seq
351
total RNA-seq
229
ATAC-seq
187
single cell RNA-seq
56
snATAC-seq
48
WGBS
32
DNase-seq
23
pCHi-C
9
RRBS
6
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
DNAme array
1
FAIRE-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
742
DNA binding
542
Transcription
318
DNA accessibility
58
DNA methylation
3D chromatin structure
Target of assay
359
transcription factor
271
histone
271
histone modification
140
broad histone mark
131
narrow histone mark
113
control
89
recombinant protein
73
RNA binding protein
31
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
324
November, 2017
227
May, 2021
148
May, 2020
144
February, 2021
134
May, 2022
94
February, 2023
73
September, 2018
62
November, 2018
62
October, 2019
59
August, 2017
59
September, 2020
51
June, 2019
48
July, 2018
43
April, 2018
27
December, 2018
26
July, 2019
23
January, 2019
15
November, 2019
14
August, 2021
12
November, 2020
11
March, 2020
8
January, 2021
7
August, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
2
March, 2023
2
October, 2018
1
January, 2018
1
October, 2022
Available data
1187
bam
1113
bigWig
835
fastq
682
bed narrowPeak
461
bigBed narrowPeak
380
tsv
153
zippedFastqFolder
120
tagAlign
107
bed broadPeak
107
bigBed broadPeak
34
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
4
tar
2
bed bed3
2
csv
1
txt
Organism
1694
Homo sapiens
Biosample type
2703
tissue
1073
primary cell
625
cell line
390
in vitro differentiated cells
10
stem cell
Organ
477
epithelium
433
pancreas
382
liver
99
vasculature
93
blood vessel
79
heart
69
blood
69
bodily fluid
68
artery
53
kidney
38
connective tissue
20
vein
18
brain
14
musculature of body
8
embryo
eye
2
adipose tissue
1
bone element
1
bone marrow
1
mammary gland
1
pericardium
Project
1162
AMP
321
HPAP
213
T1D
2
community
Genome assembly (visualization)
1128
hg19
995
GRCh38
Lab
1125
AMP-T2D consortium
321
Klaus Kaestner, Upenn
244
Kyle Gaulton, UCSD
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
144
inconsistent ontology term
27
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
57
missing controlled_by
Audit category:
31
inconsistent control read length
9
inconsistent control run_type
2
inconsistent assembly
assay_slims!
3D chromatin structure
lab.title!
Bing Ren, UCSD
organ_slims!
eye
BIOSAMPLE
ASSAY
1698 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
WGBS
DNase-seq
pCHi-C
RRBS
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
DNAme array
FAIRE-seq
MPRA
shRNA RNA-seq
siRNA RNA-seq
primary cell
monocyte
85
54
15
1
1
pancreatic alpha cell
13
52
35
12
31
Langerhans cell
85
48
pancreatic beta cell
13
21
23
12
16
CD8-positive, alpha-beta T cell
33
4
2
1
+ See 91 more…
cell line
HepG2
360
5
1
1
2
EndoC_BH1
15
33
19
6
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
+ See 12 more…
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