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Experiment matrix

Enter search terms to filter the experiments included in the matrix.

Assay
  • ChIP-seq
    32
Assay category
  • DNA binding
    32
Target of assay
  • transcription factor
    17
  • histone
    15
  • broad histone mark
    9
  • narrow histone mark
    6
  • chromatin remodeller
    3
  • RNA binding protein
    1
Date released
  • March, 2012
    8
  • August, 2012
    6
  • April, 2012
    4
  • July, 2011
    4
  • September, 2012
    4
  • June, 2011
    2
  • March, 2014
    2
  • February, 2014
    1
  • November, 2011
    1
Available data
  • bam
    32
  • bigWig
    32
  • fastq
    32
  • bed broadPeak
    31
  • bigBed broadPeak
    31
  • bed narrowPeak
    22
  • bigBed narrowPeak
    22
Experiment status
  • released
    32
Organism
  • Mus musculus
    32
Biosample type
  • tissue
    21
  • cell line
    11
Organ
  • spleen
    7
  • blood
    6
  • bodily fluid
    6
  • embryo
    4
  • heart
    4
  • brain
    2
  • intestine
    2
  • small intestine
    2
  • adipose tissue
    1
  • connective tissue
    1
  • gonad
    1
  • kidney
    1
  • limb
    1
  • liver
    1
  • musculature of body
    1
  • testis
    1
  • thymus
    1
Cell
  • stem cell
    10
Project
  • ENCODE
    32
Genome assembly
  • hg19
    600
  • GRCh38
    542
  • mm10
    254
  • mm9
    32
  • ce10
    4
  • ce11
    4
  • dm3
    4
  • dm6
    4
Lab
  • Bing Ren, UCSD
    22
  • Ross Hardison, PennState
    9
  • Barbara Wold, Caltech
    1
Audit category:
  • extremely low read depth
    6
Audit category:
  • insufficient read depth
    18
  • insufficient read length
    11
  • control insufficient read depth
    10
  • missing controlled_by
    8
  • poor library complexity
    2
  • severe bottlenecking
    2
  • insufficient replicate concordance
    1
Audit category:
  • low read length
    267
  • low read depth
    170
  • mild to moderate bottlenecking
    169
  • inconsistent platforms
    105
  • inconsistent target of control experiment
    80
  • control low read depth
    77
  • moderate library complexity
    76
  • inconsistent control read length
    32
  • borderline replicate concordance
    21
  • mixed read lengths
    21
BIOSAMPLE
ASSAY

32 results

Clear Filters
ChIP-seq
tissue
spleen7
heart4
brain2
small intestine2
brown adipose tissue1
cell line
G1E-ER46
E14TG2a.43
C2C121
ES-Bruce41
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