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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1020
total RNA-seq
670
ChIP-seq
256
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
27
WGBS
27
snATAC-seq
23
pCHi-C
16
Hi-C
12
small RNA-seq
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
2
DNase-seq
Assay category
1206
Transcription
670
DNA binding
288
DNA accessibility
37
DNA methylation
16
3D chromatin structure
Target of assay
432
histone modification
431
histone
227
broad histone mark
204
narrow histone mark
159
control
81
transcription factor
26
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
229
August, 2021
193
May, 2020
152
October, 2019
120
July, 2018
94
February, 2023
87
May, 2019
80
April, 2019
74
October, 2018
66
July, 2019
65
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
May, 2024
40
November, 2019
38
March, 2020
19
April, 2020
17
November, 2018
15
May, 2023
13
February, 2020
8
January, 2021
7
December, 2018
7
January, 2019
7
October, 2017
6
April, 2018
5
March, 2019
4
November, 2020
4
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1681
bam
1570
bigWig
1053
tsv
792
bed narrowPeak
445
bigBed narrowPeak
365
fastq
bed bed3+
177
bed broadPeak
157
txt
149
bigBed broadPeak
120
tagAlign
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
4
bed bed3
1
bedpe
Organism
2325
Homo sapiens
Biosample type
2334
tissue
1038
primary cell
659
cell line
369
in vitro differentiated cells
7
stem cell
Organ
541
connective tissue
482
adipose tissue
478
pancreas
355
liver
286
heart
brain
231
kidney
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
49
musculature of body
41
nerve
24
spleen
20
lung
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2237
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1479
GRCh38
1440
hg19
Lab
1982
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
87
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
8
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
brain
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
2334 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
298
50
67
7
4
3
1
4
1
1
adipose tissue
382
2
3
3
1
liver
167
142
20
1
3
1
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
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