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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1368
ChIP-seq
1077
total RNA-seq
225
ATAC-seq
180
DNase-seq
86
RNA microarray
74
single cell RNA-seq
31
pCHi-C
22
snATAC-seq
17
Hi-C
16
small RNA-seq
11
WGBS
10
MeRIP-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
2
HiChIP
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
1368
DNA binding
1169
Transcription
431
DNA accessibility
17
3D chromatin structure
13
DNA methylation
Target of assay
663
histone modification
662
histone
444
transcription factor
341
narrow histone mark
321
broad histone mark
266
control
92
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
other context
5
other post-translational modification
Date released
641
February, 2021
395
November, 2017
279
August, 2017
August, 2021
272
October, 2019
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
80
April, 2019
77
November, 2018
74
October, 2018
66
May, 2022
63
July, 2019
61
May, 2021
56
November, 2019
51
March, 2020
48
December, 2017
47
September, 2023
40
May, 2024
35
December, 2018
30
January, 2019
25
February, 2020
23
October, 2017
19
April, 2020
15
May, 2023
10
November, 2020
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
3
December, 2019
3
January, 2018
2
March, 2023
1
August, 2022
1
October, 2022
Available data
2476
bam
2267
bigWig
1305
bed narrowPeak
1079
tsv
911
bigBed narrowPeak
799
fastq
271
bed broadPeak
258
tagAlign
234
bigBed broadPeak
208
bed bed3+
101
txt
26
bed bedMethyl
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
bed bed3
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
Organism
3123
Homo sapiens
Biosample type
2520
tissue
1074
primary cell
615
cell line
352
in vitro differentiated cells
10
stem cell
Organ
727
liver
587
pancreas
544
connective tissue
485
adipose tissue
280
heart
264
brain
192
blood vessel
192
vasculature
187
kidney
158
bone element
137
artery
121
limb
92
epithelium
79
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
20
lung
20
spleen
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
3027
AMP
47
KPMP
40
T1D
19
LungMap
2
community
Genome assembly (visualization)
2247
hg19
2229
GRCh38
Lab
2900
AMP-T2D consortium
57
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
14
Katalin Susztak, Upenn
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
180
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
files.file_type!
bigBed bedMethyl
month_released!
August, 2021
target.investigated_as!
other context
BIOSAMPLE
ASSAY
3135 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
RNA microarray
single cell RNA-seq
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
WGBS
MeRIP-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
HiChIP
RRBS
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
...and 1 more
tissue
islet of Langerhans
71
291
68
1
6
4
7
2
4
1
adipose tissue
2
382
3
1
1
liver
145
167
20
2
1
1
1
1
3
kidney
27
11
13
56
1
bone element
84
+ See 169 more…
cell line
HepG2
358
5
1
2
1
EndoC_BH1
15
33
19
1
6
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 11 more…
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