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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1103
total RNA-seq
1026
ChIP-seq
437
ATAC-seq
366
single cell RNA-seq
203
DNase-seq
87
RNA microarray
84
snATAC-seq
70
WGBS
41
pCHi-C
24
Hi-C
19
RRBS
15
small RNA-seq
5
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
1
DNAme array
Assay category
1484
Transcription
1026
DNA binding
729
DNA accessibility
90
DNA methylation
24
3D chromatin structure
Target of assay
791
histone
791
histone modification
399
broad histone mark
392
narrow histone mark
175
control
65
transcription factor
36
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
1
chromatin remodeller
Date released
592
February, 2021
288
August, 2017
269
October, 2019
246
May, 2021
229
August, 2021
216
June, 2019
183
February, 2023
168
July, 2018
160
May, 2022
147
May, 2020
120
May, 2019
98
July, 2019
91
November, 2017
80
April, 2019
76
October, 2018
73
September, 2018
59
September, 2020
49
April, 2018
47
September, 2023
40
May, 2024
40
November, 2019
38
March, 2020
24
February, 2020
23
October, 2017
20
November, 2018
19
April, 2020
16
January, 2021
15
May, 2023
11
September, 2017
10
November, 2020
7
August, 2020
7
December, 2018
7
January, 2019
4
March, 2019
3
August, 2018
3
December, 2019
3
June, 2018
3
October, 2022
2
January, 2018
1
August, 2022
1
March, 2023
Available data
2215
bam
2108
bigWig
1187
tsv
1159
bed narrowPeak
702
fastq
618
bigBed narrowPeak
264
tagAlign
257
bed broadPeak
230
bed bed3+
220
bigBed broadPeak
157
txt
153
zippedFastqFolder
64
xls
33
bed bedMethyl
33
bigBed bedMethyl
16
hic
13
bedpe bed3+
7
csv
6
bed bed3
3
cool
3
hdf5
1
bedpe
1
tagAlign bed3+
1
tar
Organism
3479
Homo sapiens
Biosample type
2415
tissue
1073
primary cell
379
in vitro differentiated cells
261
cell line
10
stem cell
Organ
850
pancreas
586
connective tissue
490
adipose tissue
421
epithelium
liver
335
kidney
326
heart
286
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
2862
AMP
324
HPAP
235
T1D
47
KPMP
19
LungMap
1
ITG
Genome assembly (visualization)
2145
GRCh38
2101
hg19
Lab
2613
AMP-T2D consortium
324
Klaus Kaestner, Upenn
291
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
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
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
144
inconsistent ontology term
40
audit script error
Audit category:
70
missing controlled_by
Audit category:
10
inconsistent control read length
3
inconsistent assembly
inconsistent control run_type
audit.WARNING.category!
inconsistent control run_type
lab.title!
Maike Sander, UCSD
organ_slims!
liver
BIOSAMPLE
ASSAY
3488 results
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Clear Filters
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
292
71
67
6
1
7
4
3
1
1
4
adipose tissue
382
2
3
3
1
kidney
49
27
75
64
13
6
1
1
1
bone element
84
heart left ventricle
3
35
2
18
3
4
1
1
1
+ See 174 more…
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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