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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1284
total RNA-seq
1125
ChIP-seq
460
ATAC-seq
361
single cell RNA-seq
87
RNA microarray
84
snATAC-seq
74
WGBS
42
pCHi-C
26
Hi-C
21
RRBS
18
small RNA-seq
5
DNase-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1663
Transcription
1125
DNA binding
554
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
814
histone modification
813
histone
416
narrow histone mark
397
broad histone mark
222
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
593
February, 2021
340
May, 2020
329
August, 2017
268
October, 2019
246
May, 2021
233
August, 2021
200
May, 2022
183
February, 2023
168
July, 2018
120
May, 2019
108
July, 2019
85
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
41
March, 2020
40
November, 2019
31
June, 2019
25
February, 2020
23
October, 2017
19
April, 2020
18
November, 2018
16
January, 2021
15
May, 2023
11
September, 2017
9
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2516
bam
2345
bigWig
1346
tsv
1239
bed narrowPeak
786
fastq
670
bigBed narrowPeak
338
tagAlign
262
bed broadPeak
242
bed bed3+
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
35
bed bedMethyl
35
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
3
cool
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3591
Homo sapiens
Biosample type
2561
tissue
1039
primary cell
603
cell line
393
in vitro differentiated cells
10
stem cell
Organ
845
pancreas
578
connective tissue
488
adipose tissue
399
epithelium
370
liver
257
kidney
256
heart
248
brain
159
bone element
153
vasculature
151
blood vessel
86
limb
71
artery
63
musculature of body
57
eye
41
nerve
24
spleen
20
lung
18
vein
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2974
AMP
324
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2181
hg19
2134
GRCh38
Lab
2724
AMP-T2D consortium
324
Klaus Kaestner, Upenn
291
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
141
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
3600 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
DNase-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
298
71
68
7
4
3
1
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
3
1
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
+ See 159 more…
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
+ See 89 more…
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