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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1011
total RNA-seq
695
ChIP-seq
221
ATAC-seq
177
single cell RNA-seq
87
RNA microarray
27
WGBS
27
snATAC-seq
21
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
3
snDrop-seq
2
DNase-seq
2
MeRIP-seq
Assay category
1204
Transcription
695
DNA binding
254
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
614
histone modification
613
histone
316
narrow histone mark
297
broad histone mark
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
230
August, 2017
229
August, 2021
190
October, 2019
170
May, 2020
120
July, 2018
93
May, 2019
77
July, 2019
70
November, 2017
66
April, 2019
65
May, 2022
64
February, 2023
47
September, 2023
45
October, 2018
40
March, 2020
40
May, 2021
40
May, 2024
40
November, 2019
36
December, 2017
24
February, 2020
20
October, 2017
19
April, 2020
May, 2023
14
November, 2018
8
January, 2021
6
April, 2018
6
January, 2019
5
March, 2019
3
December, 2018
3
December, 2019
2
January, 2018
2
November, 2020
1
August, 2022
Available data
1769
bigWig
1737
bam
1071
tsv
954
bed narrowPeak
558
bigBed narrowPeak
310
fastq
210
bed broadPeak
bed bed3+
186
tagAlign
173
bigBed broadPeak
157
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
2312
Homo sapiens
Biosample type
2320
tissue
1013
primary cell
576
cell line
337
in vitro differentiated cells
7
stem cell
Organ
516
connective tissue
457
adipose tissue
451
pancreas
310
liver
270
heart
213
brain
211
kidney
158
bone element
112
blood vessel
112
vasculature
69
limb
62
artery
eye
45
musculature of body
30
nerve
20
lung
16
skeleton
16
spleen
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
2223
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1643
GRCh38
1538
hg19
Lab
1984
AMP-T2D consortium
128
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
2
Mark McCarthy, Oxford
2
Rohit N. Kulkarni, M.D., Ph.D.
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
files.file_type!
bed bed3+
month_released!
May, 2023
organ_slims!
eye
target.investigated_as!
control
BIOSAMPLE
ASSAY
2320 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
FAIRE-seq
snDrop-seq
DNase-seq
MeRIP-seq
tissue
islet of Langerhans
278
37
67
6
7
3
1
1
1
2
adipose tissue
381
1
3
3
1
liver
167
100
20
1
3
1
1
1
1
kidney
49
21
64
61
6
1
1
1
bone element
84
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