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The YH database: the first Asian diploid genome database
2009
Nucleic Acids Research
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The YH database is a server that allows the user to easily browse and download data from the first Asian diploid genome. ...
The YH database is currently one of the three personal genome database, organizing the original data and analysis results in a user-friendly interface, which is an endeavor to achieve fundamental goals ...
ACKNOWLEDGEMENTS This work was supported by the Shenzhen Municipal Government and the Yantian District local government of Shenzhen. ...
doi:10.1093/nar/gkn966
pmid:19073702
pmcid:PMC2686535
fatcat:64aqnao6cnhwhbrhhfjydi64ay
Gevab: a prototype genome variation analysis browsing server
2009
BMC Bioinformatics
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The first Korean individual diploid genome sequence data (KOREF) was publicized in December 2008. ...
Results: A Korean genome variation analysis and browsing server (Gevab) was constructed as a database and web server for the exploration and downloading of Korean personal genome(s). ...
Recently, the first Asian (Chinese) diploid genome database was published, containing analysis and browsing facilities [5, 6] . There are a number of general purpose genome annotation servers. ...
doi:10.1186/1471-2105-10-s15-s3
pmid:19958513
pmcid:PMC2788354
fatcat:i75lnsz3ljeqhfbj2ffvcmzfoi
The diploid genome sequence of an Asian individual
2008
Nature
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Here we present the first diploid genome sequence of an Asian individual. The genome was sequenced to 36-fold average coverage using massively parallel sequencing technology. ...
of the Asian individual's genome. ...
Acknowledgements We are indebted to the faculty and staff of Beijing Genomics Institute at Shenzhen, whose names were not included in the author list, but who contributed to this work. ...
doi:10.1038/nature07484
pmid:18987735
pmcid:PMC2716080
fatcat:6it7qj4vmvhz3dgtflnpboygeq
The first Korean genome sequence and analysis: Full genome sequencing for a socio-ethnic group
2009
Genome Research
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Despite a close similarity, significant differences were observed between the Chinese genome (YH), the only other Asian genome available, and SJK: (1) 39.87% (1,371,239 out of 3,439,107) SNPs were SJK-specific ...
We present the first Korean individual genome sequence (SJK) and analysis results. ...
Although the first Asian genome based on the genome sequencing of a Han Chinese was recently reported (Wang et al. 2008) , various SNP studies have shown that ethnic groups in Asia, including the Chinese ...
doi:10.1101/gr.092197.109
pmid:19470904
pmcid:PMC2752128
fatcat:7femyge44fcblofgi5ldlhvdee
De novo assembly of a haplotype-resolved human genome
2015
Nature Biotechnology
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The human genome is diploid, and knowledge of the variants on each chromosome is important for the interpretation of genomic information. ...
Here we report the assembly of a haplotype-resolved diploid genome without using a reference genome. ...
The authors declare no competing financial interests. Reprints and permissions information is available online at http://www.nature.com/ reprints/index.html. ...
doi:10.1038/nbt.3200
pmid:26006006
fatcat:pz4srfqkgbeyrk6pbs2gdijdfq
An integrated Asian human SNV and indel benchmark established using multiple sequencing methods
2020
Scientific Reports
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Sequencing technologies have been rapidly developed recently, leading to the breakthrough of sequencing-based clinical diagnosis, but accurate and complete genome variation benchmark would be required ...
Our study provided comprehensive sequencing data as well as the integrated variation benchmark of an Asian derived cell line, which would be valuable for future sequencing-based clinical development. ...
Xin Liu for his guidance on the project and technical assistance. ...
doi:10.1038/s41598-020-66605-6
pmid:32555294
fatcat:udqhyjx4h5fbdk4b3jnexwz7ta
High-performance single-chip exon capture allows accurate whole exome sequencing using the Illumina Genome Analyzer
2011
Science China Life Sciences
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Here we present an adaptation of NimbleGen 2.1M-probe array sequence capture for whole exome sequencing using the Illumina Genome Analyzer (GA) platform. ...
High-performance single-chip exon capture allows accurate whole exome sequencing using the Illumina Genome Analyzer. Sci China Life Sci, 2011, 54: 945 -952, ...
The consensus YH genome (the first Asian diploid genome) is from http://yh. genomics.org.cn/. ...
doi:10.1007/s11427-011-4232-4
pmid:22038007
fatcat:u47f3vyjcvgmnpuhyh6vhfr22m
Single-Cell Exome Sequencing and Monoclonal Evolution of a JAK2-Negative Myeloproliferative Neoplasm
2012
Cell
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To perform our analyses, we first devised and validated a high-throughput whole-genome single-cell sequencing method using two lymphoblastoid cell line single cells. ...
Here, we describe a method for analyzing the cancer genome at a single-cell nucleotide level. ...
ACCESSION NUMBERS All sequencing data from this study are deposited in NCBI Sequence Read Archive (http://www.ncbi.nlm.nih.gov/sra) under the accession number SRA050202. ...
doi:10.1016/j.cell.2012.02.028
pmid:22385957
fatcat:qymjmcvvizekvh5b2aoq3bo3ma
An ethnically relevant consensus Korean reference genome is a step towards personal reference genomes
2016
Nature Communications
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In 2015, a haplotype-resolved diploid YH genome was assembled using fosmid pooling together with short-read sequence data 13 . ...
In 2007, the diploid genome of a Caucasian male was sequenced and assembled using Sanger sequencing technology (HuRef) 8 . ...
doi:10.1038/ncomms13637
pmid:27882922
pmcid:PMC5123046
fatcat:plhessiswbarxf7b63auvdf3ni
Ethnically relevant consensus Korean reference genome towards personal reference genomes
[article]
2016
bioRxiv
pre-print
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KOREF is also the first consensus variome reference, providing information on millions of variants from additional ethnically homogeneous personal genomes. ...
In the era of large-scale population genome projects, the leveraging of ethnicity-specific genome assemblies as well as the human reference genome will accelerate mapping all human genome diversity. ...
In 2015, a haplotype-resolved diploid YH genome was assembled using fosmid pooling together with short-read sequence data 13 . ...
doi:10.1101/070805
fatcat:p7jhowonh5eq5g6qigbquk5m7m
Human Genome Sequencing in Health and Disease
2012
Annual Review of Medicine
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Personal diploid human genome sequences have been generated, and each has contributed to our better understanding of variation in the human genome. ...
This review summarizes the initial steps undertaken in clinical implementation of personal genome information, and describes the application of whole-genome and exome sequencing to identify the cause of ...
Asian Genomes The first Asian genome sequence to be published was the YH genome, derived from a Han Chinese individual (18) . Complete or partial deletions of 33 genes were detected in this genome. ...
doi:10.1146/annurev-med-051010-162644
pmid:22248320
pmcid:PMC3656720
fatcat:g5lkqr6l7vdvxec2cnxa4ztwg4
Draft Genome and Complete Hox-Cluster Characterization of the Sterlet (Acipenser ruthenus)
2019
Frontiers in Genetics
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in public databases. ...
Conclusions: This draft genome makes up for the lack of genomic and molecular data of the sterlet and its Hox clusters. ...
(4dTv) analysis to test the sturgeon-specific GD by comparing the sterlet genome to Asian arowana genome. ...
doi:10.3389/fgene.2019.00776
pmid:31543900
pmcid:PMC6739705
fatcat:t4lvfmywuvbtnddr4rysxds4qe
Structural variation in two human genomes mapped at single-nucleotide resolution by whole genome de novo assembly
2011
Nature Biotechnology
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Of the structural variations that we identified, 60.2% and We aligned the assembly of YH (Asian) and NA18507 (African) genome sequences against the NCBI human reference genome build 36 and refined the ...
sequence the YH genome. ...
DDBJ/EMBL/GenBank: ADDF000000000 (YH) and DAAB000000000 (NA18507). The versions described in this paper are the first versions, ADDF010000000 (YH) and DAAB010000000 (NA18507). ...
doi:10.1038/nbt.1904
pmid:21785424
fatcat:7ptftfivh5erzn3ldycfqcst4a
Long-read sequencing and de novo assembly of a Chinese genome
2016
Nature Communications
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The assembly fully or partially fills 274 (28.4%) N-gaps in the reference genome GRCh38. ...
Comparison to GRCh38 reveals 12.8 Mb of HX1-specific sequences, including 4.1 Mb that are not present in previously reported Asian genomes. ...
We thank Ahmed Naguib from BioNano Genomics for providing technical assistance. ...
doi:10.1038/ncomms12065
pmid:27356984
pmcid:PMC4931320
fatcat:cojmval3lbgwtk7pvfvcinanrm
A highly annotated whole-genome sequence of a Korean individual
2009
Nature
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First, selected genomic regions were sequenced at very high depth using overlapping BAC clones. ...
SNPs are compared between the Korean (AK1), Han Chinese (YH) and Yoruban (NA18507) genomes. ...
Confirmation of structural variants on diploid GA sequencing. The putative structural variants were confirmed using diploid GA. ...
doi:10.1038/nature08211
pmid:19587683
pmcid:PMC2860965
fatcat:fxbejm2bunb6jcgv3szbcpc44m
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