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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
854
ChIP-seq
260
ATAC-seq
178
DNase-seq
165
single cell RNA-seq
87
RNA microarray
27
WGBS
25
pCHi-C
18
snATAC-seq
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1218
Transcription
854
DNA binding
460
DNA accessibility
38
DNA methylation
16
3D chromatin structure
Target of assay
620
histone modification
619
histone
320
narrow histone mark
299
broad histone mark
187
control
76
transcription factor
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
261
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
111
May, 2019
95
February, 2023
82
November, 2017
77
July, 2019
76
April, 2019
66
May, 2022
63
October, 2018
47
September, 2023
46
December, 2017
40
March, 2020
40
May, 2021
40
November, 2019
35
May, 2024
26
November, 2018
25
February, 2020
April, 2020
19
October, 2017
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1860
bam
1721
bigWig
1076
tsv
954
bed narrowPeak
538
bigBed narrowPeak
337
fastq
234
tagAlign
211
bed broadPeak
190
bed bed3+
176
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
2697
Homo sapiens
Biosample type
2705
tissue
1034
primary cell
586
cell line
377
in vitro differentiated cells
10
stem cell
Organ
530
connective tissue
488
pancreas
471
adipose tissue
359
liver
303
heart
298
kidney
261
brain
158
bone element
130
blood vessel
130
vasculature
122
limb
82
musculature of body
72
artery
56
eye
43
nerve
25
spleen
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2627
AMP
47
KPMP
31
T1D
Genome assembly (visualization)
1808
GRCh38
1709
hg19
Lab
2377
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
35
Patrick T. Ellinor, Broad
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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
month_released!
April, 2020
audit.NOT_COMPLIANT.category!
missing controlled_by
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
2705 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
60
68
1
4
7
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
144
20
2
1
3
1
1
1
1
kidney
49
26
75
13
64
6
1
1
1
bone element
84
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