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Sample GSM2183948 Query DataSets for GSM2183948
Status Public on Aug 10, 2016
Title 1.CCIC-G9a
Sample type SRA
 
Source name T5088-CCICs
Organism Homo sapiens
Characteristics ID: T5088
cell type: colon cancer stem cells
sorting marker: CD133
Treatment protocol T5088 CRC cells sorting by CD133 marker
Growth protocol DMEM/F12, stem cell medium
Extracted molecule genomic DNA
Extraction protocol Millipore EZ-ChIP #17-371 kit
(1)DNA-end repair,3'-dA overhang and ligation of methylated sequencing adaptor.(2)PCR amplification and size selection (usually 100-300bp,including adaptorsequence).(3)Qualified library forsequencing. Which follow illumina instruction
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 4000
 
Data processing Starting fromthe Illumina GA Pipeline v1.5, the range of base quality values is from 2 to 41
ChIP-seq reads were aligned to the hg19 genome assembly using
After filtering, the clean data was then mapped to the reference genome by SOAPaligner/SOAP2 (Version: 2.21t).
MACS (Model-based Analysis for ChIP -Seq, version: MACS-1.4.2) : The candidate peak region was extended to be long enough for modeling. Dynamic Possion Distribution was used to calculated p-value of the specific region based on the unique mapped reads. The region would be defined as a peak when p-value < le-05
Genome_build: hg19
Supplementary_files_format_and_content: wig
 
Submission date Jun 01, 2016
Last update date May 15, 2019
Contact name SHIH-TING CHA
Organization name National Taiwan University
Street address 6F., No.2, Syu-jhou Road,
City TAIPEI
ZIP/Postal code 886
Country Taiwan
 
Platform ID GPL20301
Series (1)
GSE82131 HiSeq Chip-seq analysis of whole genomic landscape of G9a and H3K9me2-targeted in CCICs
Relations
BioSample SAMN05195185
SRA SRX1814973

Supplementary file Size Download File type/resource
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr1.wig.gz 11.1 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr10.wig.gz 6.4 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr11.wig.gz 6.3 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr11_gl000202_random.wig.gz 1.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr12.wig.gz 6.5 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr13.wig.gz 4.5 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr14.wig.gz 4.2 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr15.wig.gz 3.7 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr16.wig.gz 3.6 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr17.wig.gz 3.9 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr17_ctg5_hap1.wig.gz 2.5 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr17_gl000203_random.wig.gz 647 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr17_gl000204_random.wig.gz 2.8 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr17_gl000205_random.wig.gz 7.3 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr17_gl000206_random.wig.gz 268 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr18.wig.gz 3.5 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr18_gl000207_random.wig.gz 426 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr19.wig.gz 2.7 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr19_gl000208_random.wig.gz 3.9 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr19_gl000209_random.wig.gz 2.3 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr1_gl000191_random.wig.gz 1.1 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr1_gl000192_random.wig.gz 11.9 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr2.wig.gz 11.8 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr20.wig.gz 2.9 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr21.wig.gz 1.5 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr21_gl000210_random.wig.gz 321 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr22.wig.gz 1.6 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr3.wig.gz 9.7 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr4.wig.gz 9.2 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr4_ctg9_hap1.wig.gz 1.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr4_gl000193_random.wig.gz 5.8 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr4_gl000194_random.wig.gz 3.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr5.wig.gz 8.6 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6.wig.gz 8.1 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_apd_hap1.wig.gz 394 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_cox_hap2.wig.gz 9.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_dbb_hap3.wig.gz 1.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_mann_hap4.wig.gz 2.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_mcf_hap5.wig.gz 2.1 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_qbl_hap6.wig.gz 3.7 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr6_ssto_hap7.wig.gz 1.3 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr7.wig.gz 7.5 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr7_gl000195_random.wig.gz 8.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr8.wig.gz 7.1 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr8_gl000196_random.wig.gz 314 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr8_gl000197_random.wig.gz 266 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr9.wig.gz 5.4 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr9_gl000198_random.wig.gz 2.0 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr9_gl000199_random.wig.gz 4.6 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chr9_gl000201_random.wig.gz 295 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrM.wig.gz 1.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000211.wig.gz 5.8 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000212.wig.gz 4.1 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000213.wig.gz 675 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000214.wig.gz 4.8 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000215.wig.gz 410 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000216.wig.gz 7.3 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000217.wig.gz 1.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000218.wig.gz 4.6 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000219.wig.gz 8.7 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000220.wig.gz 7.9 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000221.wig.gz 1.1 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000222.wig.gz 1.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000223.wig.gz 317 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000224.wig.gz 8.3 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000225.wig.gz 9.6 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000226.wig.gz 444 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000227.wig.gz 725 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000228.wig.gz 952 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000229.wig.gz 1.1 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000230.wig.gz 1.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000231.wig.gz 1.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000232.wig.gz 2.1 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000233.wig.gz 1010 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000234.wig.gz 2.0 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000235.wig.gz 1.4 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000236.wig.gz 234 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000237.wig.gz 913 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000238.wig.gz 379 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000239.wig.gz 279 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000240.wig.gz 828 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000241.wig.gz 2.2 Kb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000242.wig.gz 444 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000243.wig.gz 433 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000244.wig.gz 264 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000245.wig.gz 282 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000246.wig.gz 541 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000247.wig.gz 325 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000248.wig.gz 329 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrUn_gl000249.wig.gz 244 b (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrX.wig.gz 5.4 Mb (ftp)(http) WIG
GSM2183948_1.CCIC-G9a_treat_afterfiting_chrY.wig.gz 54.4 Kb (ftp)(http) WIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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