http://genome.ucsc.edu/FAQ/FAQformat.html#format1

BED format provides a flexible way to define the data lines that are displayed in an annotation track. BED lines have three required fields and nine additional optional fields.

track name=pairedReads description="Clone Paired Reads" useScore=1
chr22 1000 5000 cloneA 960 + 1000 5000 0 2 567,488, 0,3512
chr22 2000 6000 cloneB 900 - 2000 6000 0 2 433,399, 0,3601

If your data set is BED-like, but it is very large and you would like to keep it on your own server, you should use the bigBed data format. (binary)

Specific format #

bedGraph #

Continuous-valued data in track format. WIG와 비슷하지만, 원래 상태를 보존하고 있다. (https://genome.ucsc.edu/goldenPath/help/bedgraph.html)

broadPeak / narrowPeak #

ChIP-seq 결과 정규화한 영역(broadPeak) 혹은 피크(narrowPeak)

Incoming Links #

Related Articles (Article 0) #

• ChIP-seq
• Genome
• Targeted genes by ChIP-seq

Related Medical Scholarly Articles (MedicalScholarlyArticle 1) #

• Practical guidelines for the comprehensive analysis of ChIP-seq data

Related Codes (Code 2) #

• AWK
• HOMER

[Codes] About (Code 3) #

• BEDOPS
• bedtools

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