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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1262
total RNA-seq
969
ChIP-seq
457
ATAC-seq
324
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
FAIRE-seq
3
snDrop-seq
2
MeRIP-seq
1
DNAme array
Assay category
1604
Transcription
969
DNA binding
750
DNA accessibility
96
DNA methylation
26
3D chromatin structure
Target of assay
865
histone modification
864
histone
439
narrow histone mark
425
broad histone mark
control
104
transcription factor
38
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
593
February, 2021
317
May, 2020
300
August, 2017
245
October, 2019
243
May, 2021
232
August, 2021
210
June, 2019
200
May, 2022
183
February, 2023
168
July, 2018
103
July, 2019
97
May, 2019
76
November, 2017
73
September, 2018
66
April, 2019
September, 2020
49
April, 2018
47
October, 2018
47
September, 2023
41
March, 2020
40
May, 2024
40
November, 2019
36
December, 2017
25
February, 2020
23
November, 2018
20
October, 2017
19
April, 2020
16
January, 2021
15
May, 2023
8
December, 2019
8
November, 2020
7
August, 2020
6
January, 2019
5
March, 2019
5
September, 2017
3
August, 2018
3
December, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2367
bigWig
2312
bam
1343
tsv
1274
bed narrowPeak
665
bigBed narrowPeak
660
fastq
284
tagAlign
262
bed broadPeak
239
bed bed3+
225
bigBed broadPeak
157
txt
134
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+
Organism
3571
Homo sapiens
Biosample type
2586
tissue
993
primary cell
579
cell line
357
in vitro differentiated cells
9
stem cell
Organ
789
pancreas
559
connective tissue
466
adipose tissue
380
epithelium
328
liver
325
kidney
308
heart
254
brain
159
bone element
149
vasculature
144
blood vessel
105
limb
90
musculature of body
68
artery
60
eye
32
nerve
20
lung
19
vein
18
ureter
17
spleen
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
3012
AMP
265
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2386
GRCh38
2365
hg19
Lab
2727
AMP-T2D consortium
288
Kyle Gaulton, UCSD
265
Klaus Kaestner, Upenn
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
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
assay_title!
FAIRE-seq
month_released!
September, 2020
target.investigated_as!
control
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
pCHi-C
Hi-C
RRBS
small RNA-seq
snDrop-seq
MeRIP-seq
DNAme array
tissue
islet of Langerhans
292
58
68
6
1
7
4
3
1
2
adipose tissue
382
1
3
3
1
liver
167
102
20
1
2
3
1
1
1
1
kidney
49
21
75
64
13
6
1
1
bone element
84
+ See 176 more…
primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
37
7
33
12
31
1
Langerhans cell
45
48
pancreatic beta cell
20
7
22
12
16
1
exocrine cell
39
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