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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1267
total RNA-seq
968
ChIP-seq
456
ATAC-seq
358
single cell RNA-seq
177
DNase-seq
87
RNA microarray
84
snATAC-seq
74
WGBS
40
pCHi-C
23
Hi-C
19
RRBS
14
small RNA-seq
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1639
Transcription
968
DNA binding
721
DNA accessibility
94
DNA methylation
23
3D chromatin structure
Target of assay
678
histone modification
677
histone
355
broad histone mark
322
narrow histone mark
191
control
101
transcription factor
35
RNA binding protein
3
chromatin remodeller
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
593
February, 2021
343
August, 2017
340
May, 2020
246
May, 2021
233
August, 2021
200
May, 2022
190
October, 2019
188
June, 2019
182
February, 2023
168
July, 2018
92
May, 2019
90
July, 2019
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
40
May, 2024
40
November, 2019
39
March, 2020
25
November, 2018
19
April, 2020
16
January, 2021
15
May, 2023
13
February, 2020
11
September, 2017
10
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
7
October, 2017
5
March, 2019
3
August, 2018
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2273
bam
2163
bigWig
1320
tsv
1076
bed narrowPeak
765
fastq
543
bigBed narrowPeak
220
tagAlign
215
bed broadPeak
207
bed bed3+
187
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
33
bed bedMethyl
33
bigBed bedMethyl
17
hic
14
bedpe bed3+
8
csv
5
bed bed3
3
cool
1
bedpe
1
hdf5
1
tar
Organism
3570
Homo sapiens
Biosample type
2512
tissue
1067
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
851
pancreas
586
connective tissue
490
adipose tissue
421
epithelium
375
liver
335
kidney
326
heart
brain
170
vasculature
164
blood vessel
159
bone element
122
limb
96
musculature of body
75
artery
61
eye
43
nerve
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
8
blood
8
bodily fluid
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2953
AMP
324
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2219
hg19
2178
GRCh38
Lab
2663
AMP-T2D consortium
324
Klaus Kaestner, Upenn
291
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
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
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
142
inconsistent ontology term
40
audit script error
27
inconsistent control
Audit category:
66
missing controlled_by
Audit category:
11
inconsistent control read length
3
inconsistent assembly
1
inconsistent control run_type
organ_slims!
brain
BIOSAMPLE
ASSAY
3579 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
WGBS
pCHi-C
Hi-C
RRBS
small RNA-seq
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
islet of Langerhans
298
71
67
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
liver
167
145
20
1
2
3
1
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
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primary cell
monocyte
54
85
15
1
1
pancreatic alpha cell
52
13
35
12
31
1
Langerhans cell
85
48
pancreatic beta cell
21
13
23
12
16
1
CD8-positive, alpha-beta T cell
4
33
2
1
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