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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1383
ChIP-seq
622
total RNA-seq
272
ATAC-seq
180
DNase-seq
174
single cell RNA-seq
28
WGBS
28
snATAC-seq
27
pCHi-C
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
RNA microarray
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1383
DNA binding
814
Transcription
484
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
666
histone modification
665
histone
450
transcription factor
343
narrow histone mark
322
broad histone mark
267
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
February, 2021
397
November, 2017
284
August, 2017
273
August, 2021
272
October, 2019
194
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
101
February, 2023
87
November, 2018
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
60
May, 2021
56
November, 2019
49
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
1942
bam
1767
bigWig
1366
bed narrowPeak
916
bigBed narrowPeak
804
fastq
663
tsv
272
bed broadPeak
250
tagAlign
235
bigBed broadPeak
207
bed bed3+
69
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
5
bed bed3
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
2782
Homo sapiens
Biosample type
2229
tissue
1040
primary cell
566
cell line
368
in vitro differentiated cells
10
stem cell
Organ
759
liver
571
pancreas
313
heart
310
kidney
265
brain
133
blood vessel
133
vasculature
116
limb
103
connective tissue
102
adipose tissue
82
musculature of body
73
artery
68
epithelium
61
blood
61
bodily fluid
56
eye
43
nerve
25
spleen
20
lung
18
ureter
8
bone element
8
embryo
8
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
thymus
1
adrenal gland
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2688
AMP
47
KPMP
39
T1D
19
LungMap
2
community
Genome assembly (visualization)
1779
GRCh38
1740
hg19
Lab
2397
AMP-T2D consortium
142
Katalin Susztak, Upenn
56
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
38
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
73
inconsistent ontology term
28
inconsistent control
4
audit script error
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
month_released!
February, 2021
organ_slims!
esophagus
thymus
BIOSAMPLE
ASSAY
2795 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
WGBS
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
RNA microarray
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
...and 3 more
tissue
islet of Langerhans
71
292
68
1
6
7
4
3
1
4
1
liver
145
167
20
2
3
1
1
1
1
kidney
27
49
75
13
59
6
1
1
1
heart left ventricle
35
3
2
3
18
4
1
1
1
left cardiac atrium
40
1
18
+ See 160 more…
cell line
HepG2
378
14
1
1
2
2
GM12878
60
1
EndoC_BH1
15
7
19
1
6
3
2
2
1
Panc1
13
1
1
H1-hESC
8
+ See 12 more…
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