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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1190
total RNA-seq
1025
ChIP-seq
447
ATAC-seq
361
single cell RNA-seq
209
DNase-seq
87
RNA microarray
84
snATAC-seq
74
WGBS
26
Hi-C
25
pCHi-C
21
RRBS
18
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1569
Transcription
1025
DNA binding
745
DNA accessibility
95
DNA methylation
26
3D chromatin structure
Target of assay
712
histone modification
711
histone
372
narrow histone mark
339
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
340
May, 2020
276
October, 2019
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
2329
bam
2136
bigWig
1256
tsv
1112
bed narrowPeak
786
fastq
670
bigBed narrowPeak
262
bed broadPeak
254
tagAlign
240
bed bed3+
225
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
3570
Homo sapiens
Biosample type
2697
tissue
882
primary cell
641
cell line
262
in vitro differentiated cells
10
stem cell
Organ
814
pancreas
585
connective tissue
490
adipose tissue
421
epithelium
375
liver
335
kidney
286
brain
284
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
8
blood
8
bodily fluid
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
3105
AMP
324
HPAP
83
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2168
GRCh38
2161
hg19
Lab
2891
AMP-T2D consortium
324
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
103
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
144
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
month_released!
May, 2021
BIOSAMPLE
ASSAY
3579 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
Hi-C
pCHi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
262
71
68
1
7
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
+ See 86 more…
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