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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1195
total RNA-seq
957
ChIP-seq
455
ATAC-seq
361
single cell RNA-seq
205
DNase-seq
87
RNA microarray
84
snATAC-seq
65
WGBS
42
pCHi-C
23
Hi-C
18
small RNA-seq
15
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1574
Transcription
957
DNA binding
748
DNA accessibility
81
DNA methylation
23
3D chromatin structure
Target of assay
703
histone
703
histone modification
367
narrow histone mark
336
broad histone mark
180
control
79
transcription factor
34
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
593
February, 2021
August, 2017
340
May, 2020
276
October, 2019
246
May, 2021
233
August, 2021
218
June, 2019
200
May, 2022
183
February, 2023
168
July, 2018
120
May, 2019
108
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
48
December, 2017
47
September, 2023
41
March, 2020
40
May, 2024
40
November, 2019
27
November, 2018
25
February, 2020
23
October, 2017
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
November, 2020
8
December, 2019
7
August, 2020
7
December, 2018
7
January, 2019
5
March, 2019
3
August, 2018
3
June, 2018
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2288
bam
2161
bigWig
1257
tsv
1180
bed narrowPeak
629
bigBed narrowPeak
553
fastq
267
tagAlign
222
bed broadPeak
216
bed bed3+
211
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
29
bed bedMethyl
29
bigBed bedMethyl
14
hic
11
bedpe bed3+
8
csv
6
bed bed3
4
hdf5
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3517
Homo sapiens
Biosample type
2493
tissue
1026
primary cell
661
cell line
326
in vitro differentiated cells
10
stem cell
Organ
660
pancreas
529
connective tissue
433
adipose tissue
389
epithelium
335
kidney
326
heart
321
liver
286
brain
170
vasculature
164
blood vessel
159
bone element
122
limb
75
artery
70
musculature of body
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
2896
AMP
321
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2195
GRCh38
2153
hg19
Lab
2606
AMP-T2D consortium
321
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:
145
inconsistent ontology term
37
audit script error
27
inconsistent control
Audit category:
36
missing controlled_by
Audit category:
1
inconsistent control read length
month_released!
October, 2022
August, 2017
BIOSAMPLE
ASSAY
3519 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
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
DNAme array
tissue
adipose tissue
382
3
1
islet of Langerhans
209
29
68
7
4
3
1
4
liver
167
97
20
1
2
1
1
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
+ See 174 more…
primary cell
monocyte
54
85
15
1
1
Langerhans cell
85
48
pancreatic alpha cell
52
34
12
31
pancreatic beta cell
21
22
12
16
CD8-positive, alpha-beta T cell
4
33
2
1
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