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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
1131
total RNA-seq
285
ATAC-seq
180
DNase-seq
180
single cell RNA-seq
87
RNA microarray
28
WGBS
28
snATAC-seq
16
small RNA-seq
13
Hi-C
11
RRBS
10
MeRIP-seq
7
pCHi-C
5
STARR-seq
4
FAIRE-seq
3
CRISPR genome editing followed by DNA sequencing
3
snDrop-seq
Capture-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
GRO-seq
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
1391
DNA binding
1331
Transcription
497
DNA accessibility
39
DNA methylation
13
3D chromatin structure
1
DNA sequencing
Target of assay
665
histone modification
664
histone
455
transcription factor
341
narrow histone mark
323
broad histone mark
271
control
93
RNA binding protein
89
recombinant protein
32
chromatin remodeller
5
nucleotide modification
5
other context
5
other post-translational modification
Date released
641
February, 2021
397
November, 2017
284
August, 2017
272
October, 2019
271
August, 2021
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
61
May, 2021
56
November, 2019
March, 2020
51
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
4
January, 2018
4
March, 2023
3
December, 2019
1
August, 2022
1
October, 2022
Available data
2478
bam
2279
bigWig
1387
bed narrowPeak
1158
tsv
916
bigBed narrowPeak
808
fastq
272
bed broadPeak
258
tagAlign
235
bigBed broadPeak
211
bed bed3+
158
txt
64
xls
26
bed bedMethyl
26
bigBed bedMethyl
6
bed bed3
6
csv
6
hic
5
bedpe bed3+
3
tar
1
bedpe
1
hdf5
1
tagAlign bed3+
1
vcf
Organism
3377
Homo sapiens
Biosample type
2737
tissue
primary cell
649
cell line
in vitro differentiated cells
6
stem cell
Organ
759
liver
581
pancreas
546
connective tissue
487
adipose tissue
372
heart
316
kidney
263
brain
196
blood vessel
196
vasculature
158
bone element
139
artery
122
limb
87
epithelium
77
musculature of body
61
blood
61
bodily fluid
56
eye
43
nerve
24
spleen
19
lung
18
ureter
16
skeleton
8
embryo
4
gonad
4
ovary
2
pituitary gland
1
lymph node
1
pericardium
1
skin of body
1
spinal cord
1
thymus
Project
3289
AMP
47
KPMP
33
T1D
19
LungMap
4
community
Genome assembly (visualization)
2312
GRCh38
2263
hg19
1
hg18
Lab
2991
AMP-T2D consortium
142
Katalin Susztak, Upenn
57
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.
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
172
inconsistent ontology term
28
inconsistent control
9
audit script error
1
inconsistent replicate
Audit category:
39
missing controlled_by
Audit category:
34
inconsistent control read length
8
inconsistent control run_type
2
inconsistent assembly
assay_title!
Capture-C
biosample_type!
in vitro differentiated cells
primary cell
month_released!
March, 2020
BIOSAMPLE
ASSAY
3392 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
snATAC-seq
small RNA-seq
Hi-C
RRBS
MeRIP-seq
pCHi-C
STARR-seq
FAIRE-seq
CRISPR genome editing followed by DNA sequencing
snDrop-seq
HiChIP
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
...and 6 more
tissue
islet of Langerhans
69
290
66
1
6
7
3
1
4
4
1
adipose tissue
2
382
3
3
liver
145
166
20
2
1
3
1
1
kidney
27
49
75
13
64
6
1
1
1
bone element
84
+ See 167 more…
cell line
HepG2
378
14
1
1
2
2
2
EndoC_BH1
14
31
17
1
6
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
1
1
+ See 10 more…
stem cell
hESC
3
SB Ad3.1
1
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