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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1025
total RNA-seq
879
ChIP-seq
231
ATAC-seq
174
single cell RNA-seq
87
RNA microarray
27
WGBS
24
pCHi-C
17
snATAC-seq
16
Hi-C
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
2
DNase-seq
Assay category
1199
Transcription
879
DNA binding
254
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
616
histone modification
615
histone
318
narrow histone mark
297
broad histone mark
184
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
238
October, 2019
229
August, 2021
193
May, 2020
120
July, 2018
115
May, 2019
82
November, 2017
80
April, 2019
77
February, 2023
74
October, 2018
61
July, 2019
48
December, 2017
47
September, 2023
41
May, 2022
40
March, 2020
40
May, 2024
40
November, 2019
38
May, 2021
25
February, 2020
23
October, 2017
19
April, 2020
17
November, 2018
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
5
March, 2019
4
November, 2020
4
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1867
bam
1756
bigWig
1060
tsv
966
bed narrowPeak
561
bigBed narrowPeak
353
fastq
238
tagAlign
213
bed broadPeak
bed bed3+
176
bigBed broadPeak
151
txt
64
xls
25
bed bedMethyl
25
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2495
Homo sapiens
Biosample type
2504
tissue
812
primary cell
654
cell line
322
in vitro differentiated cells
7
stem cell
Organ
539
connective tissue
480
adipose tissue
425
pancreas
352
liver
285
heart
234
brain
230
kidney
158
bone element
128
blood vessel
128
vasculature
86
limb
69
artery
53
eye
48
musculature of body
41
nerve
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
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2434
AMP
47
KPMP
19
LungMap
4
T1D
Genome assembly (visualization)
1639
GRCh38
1532
hg19
Lab
2204
AMP-T2D consortium
142
Katalin Susztak, Upenn
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:
90
inconsistent ontology term
27
inconsistent control
8
audit script error
Audit category:
12
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
small RNA-seq
files.file_type!
bed bed3+
lab.title!
Kyle Gaulton, UCSD
BIOSAMPLE
ASSAY
2504 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
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNase-seq
tissue
adipose tissue
382
2
3
3
1
islet of Langerhans
287
50
39
4
1
3
1
1
4
1
liver
167
142
20
1
3
1
1
1
kidney
49
27
75
64
6
1
1
1
bone element
84
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