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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1030
total RNA-seq
870
ChIP-seq
247
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
18
snATAC-seq
16
Hi-C
16
small RNA-seq
10
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1220
Transcription
870
DNA binding
271
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
591
histone modification
590
histone
307
narrow histone mark
283
broad histone mark
187
control
94
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
258
August, 2017
238
October, 2019
229
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
80
April, 2019
77
February, 2023
76
July, 2019
76
November, 2017
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2024
40
November, 2019
39
May, 2021
36
March, 2020
25
February, 2020
19
April, 2020
19
October, 2017
17
November, 2018
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
4
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1905
bam
1770
bigWig
1076
tsv
982
bed narrowPeak
561
bigBed narrowPeak
377
fastq
238
tagAlign
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2529
Homo sapiens
Biosample type
2532
tissue
834
primary cell
594
cell line
393
in vitro differentiated cells
10
stem cell
Organ
544
connective tissue
485
adipose tissue
455
pancreas
358
liver
286
heart
231
kidney
229
brain
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
41
nerve
37
musculature of body
24
spleen
20
lung
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2466
AMP
47
KPMP
T1D
19
LungMap
Genome assembly (visualization)
1666
GRCh38
1556
hg19
Lab
2209
AMP-T2D consortium
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
25
Kyle Gaulton, UCSD
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
24
missing controlled_by
Audit category:
6
inconsistent control read length
organ_slims!
pericardium
files.file_type!
bed broadPeak
award.project!
T1D
BIOSAMPLE
ASSAY
2532 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
291
63
55
4
1
3
1
1
4
1
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
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