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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1025
total RNA-seq
857
ChIP-seq
231
ATAC-seq
174
single cell RNA-seq
169
DNase-seq
87
RNA microarray
24
pCHi-C
21
WGBS
18
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
Assay category
1215
Transcription
857
DNA binding
421
DNA accessibility
32
DNA methylation
16
3D chromatin structure
Target of assay
593
histone modification
592
histone
309
narrow histone mark
283
broad histone mark
184
control
82
transcription factor
23
RNA binding protein
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
77
July, 2019
74
October, 2018
48
December, 2017
47
September, 2023
42
May, 2022
40
March, 2020
40
November, 2019
38
May, 2021
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1857
bam
1709
bigWig
1076
tsv
909
bed narrowPeak
544
bigBed narrowPeak
327
fastq
238
tagAlign
204
bed broadPeak
196
bed bed3+
167
bigBed broadPeak
151
txt
64
xls
19
bed bedMethyl
19
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2650
Homo sapiens
Biosample type
2659
tissue
848
primary cell
596
cell line
347
in vitro differentiated cells
10
stem cell
Organ
546
connective tissue
487
adipose tissue
447
pancreas
354
liver
299
kidney
273
heart
263
brain
158
bone element
133
blood vessel
133
vasculature
122
limb
82
musculature of body
73
artery
56
eye
43
nerve
20
lung
18
ureter
16
skeleton
16
spleen
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2589
AMP
47
KPMP
19
LungMap
4
T1D
Genome assembly (visualization)
1797
GRCh38
1720
hg19
Lab
2399
AMP-T2D consortium
142
Katalin Susztak, Upenn
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
November, 2018
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
2659 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
pCHi-C
WGBS
snATAC-seq
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
287
71
39
1
4
1
3
1
4
1
adipose tissue
382
2
3
1
3
liver
167
141
20
1
1
3
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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