GB/T 35890-2018 in English
VALIDTechnical specification of high throughput sequencing data format
- Issued on:2018-02-06
- Implemented on:2018-09-01
- File Format:PDF
- Delivery:Via email within 1~3 business days
$214.00
《GB/T 35890-2018高通量测序数据序列格式规范》由TC387（全国生化检测标准化技术委员会）归口，主管部门为国家标准化管理委员会。
Introduction
The significance of standardization of high-throughput sequencing data sequence format specification
With the rapid development of biotechnology, high-throughput sequencing (HTS) technology has been widely used in genomic research, disease diagnosis and biodiversity analysis. In order to ensure the quality and reproducibility of HTS data, the National Standard of the People's Republic of China GB/T 35890-2018 "High-throughput Sequencing Data Sequence Format Specification" came into being.
Background of Standardization
This standard was proposed and coordinated by the National Technical Committee for Standardization of Biochemical Testing (SAC/TC 387), and the main drafting units include Shenzhen BGI Genomics Institute and China Institute of Metrology. The formulation of this standard aims to unify the sequence format of high-throughput sequencing data and ensure that data can be efficiently shared and analyzed between different platforms and institutions.
Explanation of core terms
- High-throughput sequencing: A sequencing technology that is characterized by the parallel sequencing of tens of thousands of nucleic acid molecules at a time and is applicable to DNA and RNA.
- Reads: Sequence fragments containing base sequences and quality values generated by high-throughput sequencing platforms.
- Insert size: The distance between the sequencing fragments of the template strand and the complementary strand in double-end sequencing.
Main format specifications comparison
| Format type | Data representation | Applicable scenarios | Example |
|---|---|---|---|
| FASTQ format | Text-based sequence and quality information, with every four lines representing a sequencing fragment. | Suitable for fast data exchange and small project analysis. | $@$reads ID ATGC + ! |
| SAM/BAM format | SAM is a text format, and BAM is its binary version, which supports sequence alignment information. | Applicable to scenarios where large-scale data analysis and comparison results need to be stored. | @SQ SN:chr1 LN:203413412 |
Implementation suggestions
Data processing flow optimization
- Choose appropriate sequencing platforms and analysis tools to ensure compatibility.
- Generate and store data files strictly in accordance with standard requirements.
- Perform regular quality control checks to ensure data integrity.
Case Analysis
FASTQ format application example
Sequencing fragment ID: A81C7HABXX:5:1:1429:2133#CNNNNNNN/1 Base sequence: TAAAGACAGCATCCTACTGGATTAGGGGTGGGCCCTAAATCCAATGACTC Quality value: +10gggggggggggfgggcgggggeggggggggggegggeggagggggggggggfgｇ
SAM/BAM format application example
HD VN:1.4 GO:none SO:coordinate SQ SN:chr1 LN:203413412 RG ID:CL10000843 PL:Illumina PU:CL10000843 LB:WGS_PE100 SM:WGS_ PE100 CN:BGI
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