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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1174
total RNA-seq
1029
ChIP-seq
431
ATAC-seq
361
single cell RNA-seq
209
DNase-seq
87
RNA microarray
74
WGBS
66
snATAC-seq
26
Hi-C
25
pCHi-C
21
RRBS
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1553
Transcription
1029
DNA binding
711
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
716
histone modification
715
histone
374
narrow histone mark
341
broad histone mark
219
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
343
August, 2017
295
May, 2020
276
October, 2019
233
August, 2021
218
June, 2019
176
May, 2022
168
July, 2018
165
February, 2023
120
May, 2019
108
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
58
May, 2021
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
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
2312
bam
2130
bigWig
1250
tsv
1107
bed narrowPeak
762
fastq
670
bigBed narrowPeak
262
bed broadPeak
254
tagAlign
240
bed bed3+
225
bigBed broadPeak
153
zippedFastqFolder
151
txt
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
3525
Homo sapiens
Biosample type
2685
tissue
849
primary cell
657
cell line
347
in vitro differentiated cells
10
stem cell
Organ
800
pancreas
585
connective tissue
490
adipose tissue
421
epithelium
375
liver
335
kidney
286
brain
286
heart
170
vasculature
164
blood vessel
158
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
3139
AMP
324
HPAP
47
KPMP
19
LungMap
4
T1D
1
ITG
Genome assembly (visualization)
2175
GRCh38
2150
hg19
Lab
2949
AMP-T2D consortium
324
Klaus Kaestner, Upenn
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:
140
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
70
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
3534 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
WGBS
snATAC-seq
Hi-C
pCHi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
287
71
39
1
1
3
4
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
+ See 176 more…
primary cell
pancreatic alpha cell
52
13
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
exocrine cell
39
pancreatic acinar cell
4
8
9
12
1
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