CN101984445B - 一种基于聚合酶链式反应产物测序序列分型的实现方法和系统 - Google Patents
一种基于聚合酶链式反应产物测序序列分型的实现方法和系统 Download PDFInfo
- Publication number
- CN101984445B CN101984445B CN2010101177034A CN201010117703A CN101984445B CN 101984445 B CN101984445 B CN 101984445B CN 2010101177034 A CN2010101177034 A CN 2010101177034A CN 201010117703 A CN201010117703 A CN 201010117703A CN 101984445 B CN101984445 B CN 101984445B
- Authority
- CN
- China
- Prior art keywords
- somatotype
- database
- base
- sequence
- base sequence
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Active
Links
- 238000000034 method Methods 0.000 title claims abstract description 50
- 238000012163 sequencing technique Methods 0.000 title claims abstract description 48
- 238000003752 polymerase chain reaction Methods 0.000 title abstract description 6
- 238000011451 sequencing strategy Methods 0.000 claims abstract description 17
- 238000012986 modification Methods 0.000 claims abstract description 7
- 230000004048 modification Effects 0.000 claims abstract description 7
- 238000004590 computer program Methods 0.000 claims abstract description 5
- 230000008034 disappearance Effects 0.000 claims description 10
- 238000001712 DNA sequencing Methods 0.000 claims description 7
- 238000007781 pre-processing Methods 0.000 claims description 7
- 239000011159 matrix material Substances 0.000 claims description 5
- 108090000623 proteins and genes Proteins 0.000 abstract description 14
- 238000012790 confirmation Methods 0.000 abstract 1
- 238000003384 imaging method Methods 0.000 abstract 1
- 239000000047 product Substances 0.000 description 13
- 108700028369 Alleles Proteins 0.000 description 6
- 230000008569 process Effects 0.000 description 5
- 239000000523 sample Substances 0.000 description 5
- 230000003321 amplification Effects 0.000 description 4
- 238000010586 diagram Methods 0.000 description 4
- 238000005304 joining Methods 0.000 description 4
- 238000003199 nucleic acid amplification method Methods 0.000 description 4
- 238000013461 design Methods 0.000 description 3
- 238000005516 engineering process Methods 0.000 description 3
- 238000009396 hybridization Methods 0.000 description 3
- 238000004519 manufacturing process Methods 0.000 description 3
- 238000012408 PCR amplification Methods 0.000 description 2
- 230000001174 ascending effect Effects 0.000 description 2
- 238000001514 detection method Methods 0.000 description 2
- 230000001105 regulatory effect Effects 0.000 description 2
- 241000700721 Hepatitis B virus Species 0.000 description 1
- 241000701806 Human papillomavirus Species 0.000 description 1
- 241000701076 Macacine alphaherpesvirus 1 Species 0.000 description 1
- 108091034117 Oligonucleotide Proteins 0.000 description 1
- 108020005187 Oligonucleotide Probes Proteins 0.000 description 1
- 230000000735 allogeneic effect Effects 0.000 description 1
- 238000004458 analytical method Methods 0.000 description 1
- 239000000427 antigen Substances 0.000 description 1
- 108091007433 antigens Proteins 0.000 description 1
- 102000036639 antigens Human genes 0.000 description 1
- 230000008859 change Effects 0.000 description 1
- 239000003086 colorant Substances 0.000 description 1
- 238000012937 correction Methods 0.000 description 1
- 230000008878 coupling Effects 0.000 description 1
- 238000010168 coupling process Methods 0.000 description 1
- 238000005859 coupling reaction Methods 0.000 description 1
- 238000012217 deletion Methods 0.000 description 1
- 230000037430 deletion Effects 0.000 description 1
- 208000022602 disease susceptibility Diseases 0.000 description 1
- 230000000694 effects Effects 0.000 description 1
- 238000001962 electrophoresis Methods 0.000 description 1
- 239000012467 final product Substances 0.000 description 1
- 208000002672 hepatitis B Diseases 0.000 description 1
- 230000028993 immune response Effects 0.000 description 1
- 238000003780 insertion Methods 0.000 description 1
- 230000037431 insertion Effects 0.000 description 1
- 230000007246 mechanism Effects 0.000 description 1
- 238000006384 oligomerization reaction Methods 0.000 description 1
- 239000002751 oligonucleotide probe Substances 0.000 description 1
- 210000000056 organ Anatomy 0.000 description 1
- 230000008520 organization Effects 0.000 description 1
- 238000012545 processing Methods 0.000 description 1
- 230000001915 proofreading effect Effects 0.000 description 1
- 238000011084 recovery Methods 0.000 description 1
- 230000009467 reduction Effects 0.000 description 1
- 238000012216 screening Methods 0.000 description 1
- 238000002864 sequence alignment Methods 0.000 description 1
- 241000894007 species Species 0.000 description 1
- 238000003860 storage Methods 0.000 description 1
- 230000001360 synchronised effect Effects 0.000 description 1
- 238000012360 testing method Methods 0.000 description 1
- 238000012549 training Methods 0.000 description 1
Images
Classifications
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
- G16B30/10—Sequence alignment; Homology search
Abstract
Description
Claims (10)
Priority Applications (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
CN2010101177034A CN101984445B (zh) | 2010-03-04 | 2010-03-04 | 一种基于聚合酶链式反应产物测序序列分型的实现方法和系统 |
PCT/CN2011/000347 WO2011106994A1 (zh) | 2010-03-04 | 2011-03-03 | 基于聚合酶链式反应产物测序序列分型的实现方法和系统 |
Applications Claiming Priority (1)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
CN2010101177034A CN101984445B (zh) | 2010-03-04 | 2010-03-04 | 一种基于聚合酶链式反应产物测序序列分型的实现方法和系统 |
Publications (2)
Publication Number | Publication Date |
---|---|
CN101984445A CN101984445A (zh) | 2011-03-09 |
CN101984445B true CN101984445B (zh) | 2012-03-14 |
Family
ID=43641614
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
CN2010101177034A Active CN101984445B (zh) | 2010-03-04 | 2010-03-04 | 一种基于聚合酶链式反应产物测序序列分型的实现方法和系统 |
Country Status (2)
Country | Link |
---|---|
CN (1) | CN101984445B (zh) |
WO (1) | WO2011106994A1 (zh) |
Cited By (1)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN108624671A (zh) * | 2017-03-20 | 2018-10-09 | 深圳华大基因股份有限公司 | 用于hla分型的基因型序列 |
Families Citing this family (15)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN102321749B (zh) * | 2011-08-11 | 2013-02-06 | 中南大学 | 一种micb基因分型的pcr-sbt方法及试剂盒 |
CN102750461B (zh) * | 2012-06-14 | 2015-04-22 | 东北大学 | 一种可得到完全解的生物序列局部比对方法 |
KR101482011B1 (ko) * | 2012-10-29 | 2015-01-14 | 삼성에스디에스 주식회사 | 염기 서열 정렬 시스템 및 방법 |
KR101508816B1 (ko) * | 2012-10-29 | 2015-04-07 | 삼성에스디에스 주식회사 | 염기 서열 정렬 시스템 및 방법 |
CN104395900B (zh) * | 2013-03-15 | 2017-08-25 | 北京未名博思生物智能科技开发有限公司 | 序列比对的空间计数运算方法 |
CN103617375B (zh) * | 2013-12-02 | 2017-08-25 | 深圳华大基因健康科技有限公司 | 聚合酶链式反应产物测序分型的方法及系统 |
CN104263850B (zh) * | 2014-06-19 | 2017-06-06 | 重庆医科大学 | 基于SNaPshot技术的小鼠肝炎病毒分型检测方法及试剂盒 |
US11594301B2 (en) | 2015-10-21 | 2023-02-28 | Coherent Logix, Incorporated | DNA alignment using a hierarchical inverted index table |
CN108241792B (zh) * | 2016-12-23 | 2021-03-23 | 深圳华大基因科技服务有限公司 | 一种整合多平台基因分型结果的方法和装置 |
CN108660198B (zh) * | 2018-05-15 | 2022-02-22 | 广州血液中心 | 一种血小板膜蛋白cd36抗原基因分型的pcr-sbt方法及试剂 |
CN109753939B (zh) * | 2019-01-11 | 2021-04-20 | 银丰基因科技有限公司 | 一种hla测序峰图识别方法 |
CN110706746B (zh) * | 2019-11-27 | 2021-09-17 | 北京博安智联科技有限公司 | 一种dna混合分型数据库比对算法 |
CN112102883B (zh) * | 2020-08-20 | 2023-12-08 | 深圳华大生命科学研究院 | 一种fastq文件压缩中的碱基序列编码方法和系统 |
CN113380323B (zh) * | 2021-07-19 | 2022-09-23 | 浙江迪谱诊断技术有限公司 | Sanger测序峰图截取标识方法、系统、计算机设备及存储介质 |
CN114023379B (zh) * | 2021-12-31 | 2022-05-13 | 浙江迪谱诊断技术有限公司 | 一种确定基因型的方法及装置 |
Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN1680589A (zh) * | 2003-06-06 | 2005-10-12 | 李志广 | 基因芯片用人类白细胞抗原分型探针的筛选及其应用方法 |
CN1896284A (zh) * | 2006-06-30 | 2007-01-17 | 博奥生物有限公司 | 一种鉴别等位基因类型的方法 |
CN101654691A (zh) * | 2009-09-23 | 2010-02-24 | 深圳华大基因科技有限公司 | Hla基因扩增和基因分型方法及其相关引物 |
Family Cites Families (2)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
EP1003917A1 (en) * | 1997-08-11 | 2000-05-31 | Visible Genetics Inc. | Method and kit for hla class i typing dna |
JP2010506595A (ja) * | 2006-10-17 | 2010-03-04 | ライフ テクノロジーズ コーポレーション | 対立遺伝子タイピングの方法 |
-
2010
- 2010-03-04 CN CN2010101177034A patent/CN101984445B/zh active Active
-
2011
- 2011-03-03 WO PCT/CN2011/000347 patent/WO2011106994A1/zh active Application Filing
Patent Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN1680589A (zh) * | 2003-06-06 | 2005-10-12 | 李志广 | 基因芯片用人类白细胞抗原分型探针的筛选及其应用方法 |
CN1896284A (zh) * | 2006-06-30 | 2007-01-17 | 博奥生物有限公司 | 一种鉴别等位基因类型的方法 |
CN101654691A (zh) * | 2009-09-23 | 2010-02-24 | 深圳华大基因科技有限公司 | Hla基因扩增和基因分型方法及其相关引物 |
Cited By (2)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN108624671A (zh) * | 2017-03-20 | 2018-10-09 | 深圳华大基因股份有限公司 | 用于hla分型的基因型序列 |
CN108624671B (zh) * | 2017-03-20 | 2022-02-01 | 深圳华大基因股份有限公司 | 用于hla分型的基因型序列 |
Also Published As
Publication number | Publication date |
---|---|
CN101984445A (zh) | 2011-03-09 |
WO2011106994A1 (zh) | 2011-09-09 |
Similar Documents
Publication | Publication Date | Title |
---|---|---|
CN101984445B (zh) | 一种基于聚合酶链式反应产物测序序列分型的实现方法和系统 | |
Dissanayake et al. | Applied aspects of methods to infer phylogenetic relationships amongst fungi | |
Herrero et al. | Ensembl comparative genomics resources | |
JP3055942B2 (ja) | オリゴプローブ設計ステーション:コンピューターによるオリゴヌクレオチドプローブおよびプライマーの設計方法 | |
EP2718862B1 (en) | Method for assembly of nucleic acid sequence data | |
Robbertse et al. | Improving taxonomic accuracy for fungi in public sequence databases: applying ‘one name one species’ in well-defined genera with Trichoderma/Hypocrea as a test case | |
Bernardes et al. | Improvement in protein domain identification is reached by breaking consensus, with the agreement of many profiles and domain co-occurrence | |
Bates et al. | Meeting report: fungal ITS workshop (October 2012) | |
Taylor et al. | A bioinformatics pipeline for sequence-based analyses of fungal biodiversity | |
Kretzer et al. | Taxonomy of the Rhizopogon vinicolor species complex based on analysis of ITS sequences and microsatellite loci | |
CN106446254A (zh) | 文件检测方法和装置 | |
Jorna et al. | Species boundaries in the messy middle—A genome‐scale validation of species delimitation in a recently diverged lineage of coastal fog desert lichen fungi | |
JP5469882B2 (ja) | 生物種同定方法及びシステム | |
Dowie et al. | Increased phylogenetic resolution within the ecologically important Rhizopogon subgenus Amylopogon using 10 anonymous nuclear loci | |
Li et al. | Three new species of Calocybe (Agaricales, Basidiomycota) from northeastern China are supported by morphological and molecular data | |
CN109326322B (zh) | 一种作物不同分离群体间qtl比较的方法及系统 | |
Schull et al. | Champagne: whole-genome phylogenomic character matrix method places Myomorpha basal in Rodentia | |
Bootsma et al. | A GT-seq panel for walleye (Sander vitreus) provides a generalized workflow for efficient development and implementation of amplicon panels in non-model organisms | |
US20110301862A1 (en) | System for array-based DNA copy number and loss of heterozygosity analyses and reporting | |
Turudić et al. | Dig-up Primers: A Pipeline for Identification of Polymorphic Microsatellites Loci within Assemblies of Related Species | |
Riley et al. | Fungal phylogenomics | |
CN113409885B (zh) | 一种自动化数据处理以及作图方法及系统 | |
Herrero et al. | Database: The journal of biological databases and Curation | |
Lasham | An environmental DNA analysis of genus Cortinarius species diversity in Te Wai Pounamu/The South Island of Aotearoa New Zealand | |
Boria et al. | NGS-Trex: an automatic analysis workflow for RNA-Seq data |
Legal Events
Date | Code | Title | Description |
---|---|---|---|
C06 | Publication | ||
PB01 | Publication | ||
C10 | Entry into substantive examination | ||
SE01 | Entry into force of request for substantive examination | ||
C14 | Grant of patent or utility model | ||
GR01 | Patent grant | ||
PE01 | Entry into force of the registration of the contract for pledge of patent right |
Denomination of invention: Method and system for implementing typing based on polymerase chain reaction sequencing Effective date of registration: 20130426 Granted publication date: 20120314 Pledgee: Export Import Bank of China Pledgor: BGI-Shenzhen Co., Ltd. Registration number: 2013990000247 |
|
PLDC | Enforcement, change and cancellation of contracts on pledge of patent right or utility model | ||
ASS | Succession or assignment of patent right |
Owner name: SHENZHEN BEIJING GENOMICS INSTITUTE HEALTH TECHNOL Free format text: FORMER OWNER: BGI-SHENZHEN CO., LTD. Effective date: 20130923 |
|
C41 | Transfer of patent application or patent right or utility model | ||
TR01 | Transfer of patent right |
Effective date of registration: 20130923 Address after: Yantian District of Shenzhen City, Guangdong province 518083 North Road No. 146 North Industrial Zone 11, floor 3, 2 Patentee after: Shenzhen Huada Gene Health Technology Co., Ltd. Address before: Beishan Industrial Zone Building in Yantian District of Shenzhen city of Guangdong Province in 518083 Patentee before: BGI-Shenzhen Co., Ltd. |
|
CI01 | Publication of corrected invention patent application |
Correction item: Patentee Correct: BGI-Shenzhen Co., Ltd. False: Shenzhen Huada Gene Health Technology Co., Ltd. Number: 42 Volume: 29 |
|
ERR | Gazette correction |
Free format text: CORRECT: PATENTEE; FROM: SHENZHEN BEIJING GENOMICS INSTITUTE HEALTH TECHNOLOGY CO., LTD. TO: BGI-SHENZHEN CO., LTD. |
|
PC01 | Cancellation of the registration of the contract for pledge of patent right |
Date of cancellation: 20171206 Granted publication date: 20120314 Pledgee: Export Import Bank of China Pledgor: BGI-Shenzhen Co., Ltd. Registration number: 2013990000247 |
|
PC01 | Cancellation of the registration of the contract for pledge of patent right | ||
PE01 | Entry into force of the registration of the contract for pledge of patent right |
Denomination of invention: Method and system for implementing typing based on polymerase chain reaction sequencing Effective date of registration: 20171213 Granted publication date: 20120314 Pledgee: Shenzhen branch of China Import and Export Bank|Agricultural Bank of China Limited by Share Ltd Shenzhen Eastern Branch|Bank of China Limited by Share Ltd Shenzhen East Branch|China Co truction Bank Corp Shenzhen branch Pledgor: BGI-Shenzhen Co., Ltd. Registration number: 2017440020067 |
|
PE01 | Entry into force of the registration of the contract for pledge of patent right | ||
PC01 | Cancellation of the registration of the contract for pledge of patent right |
Date of cancellation: 20190626 Granted publication date: 20120314 Pledgee: Shenzhen branch of China Import and Export Bank|Agricultural Bank of China Limited by Share Ltd Shenzhen Eastern Branch|Bank of China Limited by Share Ltd Shenzhen East Branch|China Co truction Bank Corp Shenzhen branch Pledgor: BGI-Shenzhen Co., Ltd. Registration number: 2017440020067 |
|
PC01 | Cancellation of the registration of the contract for pledge of patent right | ||
PE01 | Entry into force of the registration of the contract for pledge of patent right | ||
PE01 | Entry into force of the registration of the contract for pledge of patent right |
Denomination of invention: A method and system based on PCR products sequencing sequence typing Effective date of registration: 20200924 Granted publication date: 20120314 Pledgee: Qingdao West Coast Development (Group) Co., Ltd|Qingdao HAIC Group Financial Holding Co., Ltd Pledgor: BGI SHENZHEN Co.,Ltd. Registration number: Y2020440020012 |