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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1391
ChIP-seq
1150
total RNA-seq
174
single cell RNA-seq
87
RNA microarray
31
pCHi-C
28
WGBS
20
Hi-C
16
small RNA-seq
11
RRBS
10
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
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
1391
DNA binding
1342
Transcription
DNA accessibility
39
DNA methylation
20
3D chromatin structure
1
DNA sequencing
Target of assay
666
histone modification
665
histone
455
transcription factor
343
narrow histone mark
322
broad histone mark
270
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
624
February, 2021
397
November, 2017
279
August, 2017
250
October, 2019
203
August, 2021
194
May, 2020
120
July, 2018
115
May, 2019
80
April, 2019
77
November, 2018
74
October, 2018
69
July, 2019
48
December, 2017
47
March, 2020
47
September, 2023
45
May, 2021
40
May, 2024
35
December, 2018
35
November, 2019
30
January, 2019
27
May, 2022
25
February, 2020
20
February, 2023
15
October, 2017
10
November, 2020
9
April, 2020
6
April, 2018
6
September, 2017
4
May, 2023
3
December, 2019
2
March, 2023
1
March, 2019
1
October, 2022
Available data
2232
bam
2065
bigWig
1193
tsv
987
bed narrowPeak
763
fastq
730
bigBed narrowPeak
258
tagAlign
157
txt
93
bed broadPeak
58
bigBed broadPeak
30
bed bed3+
26
bed bedMethyl
26
bigBed bedMethyl
13
hic
12
bedpe bed3+
6
csv
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
2926
Homo sapiens
Biosample type
2307
tissue
800
primary cell
631
cell line
349
in vitro differentiated cells
10
stem cell
Organ
736
liver
539
connective tissue
495
pancreas
480
adipose tissue
305
heart
233
brain
167
kidney
148
blood vessel
148
vasculature
146
bone element
90
artery
78
limb
62
epithelium
60
blood
60
bodily fluid
48
musculature of body
40
nerve
25
eye
23
spleen
10
lung
8
embryo
5
gonad
5
ovary
4
skeleton
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pericardium
1
pituitary gland
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2861
AMP
47
KPMP
19
T1D
9
LungMap
2
community
Genome assembly (visualization)
1982
hg19
1976
GRCh38
Lab
2694
AMP-T2D consortium
61
Katalin Susztak, Upenn
47
KPMP
40
Patrick T. Ellinor, Broad
37
Bing Ren, UCSD
20
Karen Mohlke, UNC
18
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
9
Xin Sun, UCSD
2
Anna Gloyn, Oxford
Audit category:
162
inconsistent ontology term
28
inconsistent control
7
audit script error
Audit category:
39
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
lab.title!
Struan F.A. Grant, CHOP
assay_slims!
DNA accessibility
BIOSAMPLE
ASSAY
2938 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
RNA microarray
pCHi-C
WGBS
Hi-C
small RNA-seq
RRBS
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
tissue
adipose tissue
2
382
1
3
islet of Langerhans
71
298
4
3
1
4
liver
145
167
1
1
3
1
1
1
kidney
27
49
64
1
1
bone element
84
+ See 149 more…
cell line
HepG2
378
14
2
1
2
2
1
EndoC_BH1
15
33
1
6
3
2
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
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