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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
1143
ChIP-seq
460
ATAC-seq
361
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
74
WGBS
42
pCHi-C
26
Hi-C
21
RRBS
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1663
Transcription
1143
DNA binding
758
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
827
histone modification
826
histone
423
narrow histone mark
403
broad histone mark
222
control
99
transcription factor
33
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
593
February, 2021
340
August, 2017
340
May, 2020
276
October, 2019
246
May, 2021
233
August, 2021
218
June, 2019
200
May, 2022
183
February, 2023
168
July, 2018
120
May, 2019
108
July, 2019
91
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
27
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
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
2513
bam
2342
bigWig
1346
tsv
1236
bed narrowPeak
783
fastq
667
bigBed narrowPeak
336
tagAlign
260
bed broadPeak
242
bed bed3+
224
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
3814
Homo sapiens
Biosample type
2736
tissue
1086
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
850
pancreas
586
connective tissue
490
adipose tissue
421
epithelium
375
liver
335
kidney
286
brain
286
heart
170
vasculature
164
blood vessel
159
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
25
spleen
22
vein
20
lung
18
ureter
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
3196
AMP
324
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2380
hg19
2352
GRCh38
Lab
2946
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:
145
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
inconsistent assembly
1
inconsistent control run_type
audit.WARNING.category!
inconsistent assembly
BIOSAMPLE
ASSAY
3822 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
298
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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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
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