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Han Chinese individual

Updated genome assembly of YH: the first diploid genome sequence of a Han Chinese individual (version 2, 07/2012)

Dataset type: Genomic
Data released on December 12, 2012

Wang J; Li Y; Luo R; Liu B; Xie Y; Li Z; Fang X; Zheng H; Qin J; Yang B; Yu C; Ni P; Li N; Guo G; Ye J; Fang L; Su Y; Asan ; Zheng H; Kristiansen K; Wong GK; Nielsen R; Durbin R; Bolund L; Zhang X; Li S; Yang H; Wang J (2012): Updated genome assembly of YH: the first diploid genome sequence of a Han Chinese individual (version 2, 07/2012) GigaScience Database. https://doi.org/10.5524/100038

DOI10.5524/100038

Updated genomic data from the YH (Homo sapiens) diploid genome – the first sequenced Han Chinese individual, a representative of the Asian population. The genomic DNA used in this study came from an anonymous male Han Chinese individual who has no known genetic diseases. The original version of the YH genome was assembled based on 3.3 billion reads using the Illumina Genome Analyzer (see dataset doi:10.5524/100015). This latest (as of 07/2012) and improved version of the YH genome was assembled based on 2.1 billion reads using the Illumina HiSeq2000. A total of 202G nucleotides data was achieved using 100 bp-long paired end reads with an insert size ranging from 180 bp to 40 kbp, and the genome was sequenced to 67.5-fold average coverage. The latest version of SOAPdenovo2 was used to reassemble, improve and update the previously assembled genome (tools and pipelines available here: doi:10.5524/100044). By aligning the short reads with SOAP, 177G nucleotides were mapped onto the NCBI reference genome and 99.99% of the genome was covered. The raw sequences, assemblies and relevant tools are released for public use under a CC0 license. More information about the YH genome can be viewed at: http://yh.genomics.org.cn/

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Additional details

Read the peer-reviewed publication(s):

  • Wang, J., Wang, W., Li, R., Li, Y., Tian, G., Goodman, L., Fan, W., Zhang, J., Li, J., Zhang, J., Guo, Y., Feng, B., Li, H., Lu, Y., Fang, X., Liang, H., Du, Z., Li, D., Zhao, Y., … Wang, J. (2008). The diploid genome sequence of an Asian individual. Nature, 456(7218), 60–65. https://doi.org/10.1038/nature07484 (PubMed:18987735)
Related datasets:

doi:10.5524/100038 IsNewVersionOf doi:10.5524/100015
doi:10.5524/100038 IsCompiledBy doi:10.5524/100044
doi:10.5524/100038 IsSupplementedBy doi:10.5524/100097
doi:10.5524/100038 IsSupplementedBy doi:10.5524/100096

Additional information:

http://yh.genomics.org.cn/

Genome browser:

http://yh.genomics.org.cn/mapview.jsp?

Accessions (data included in GigaDB):

ENA: ERP001652

Projects:

Go to 1000 Genomes website

Click on a table column to sort the results.

Table Settings
Sample ID Common Name Scientific Name Sample Attributes Taxonomic ID Genbank Name
YH Human Homo sapiens 9606 human
Displaying 1 samples of 1

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Table Settings

File Name Description Sample ID Data Type File Format Size Release Date File Attributes Download
Readme TEXT 2.46 kB 2012-12-12 MD5 checksum: 5239d9da41eb36d79d7ca01c61b1bf05
Sequence assembly FASTA 857.61 MB 2012-12-12 MD5 checksum: cddb9c4fcbd2225ff5181d1fa04095e6
Genome sequence FASTQ 6.40 GB 2012-12-12 MD5 checksum: d996791956095799ed704716602c44ee
Genome sequence FASTQ 5.71 GB 2012-12-12 MD5 checksum: 921abb3799bf721150a836bcb697bb3d
Genome sequence FASTQ 5.54 GB 2012-12-12 MD5 checksum: 0332d882679d05a035d11e22998d51cb
Genome sequence FASTQ 5.43 GB 2012-12-12 MD5 checksum: 8f647e40cf3bbdba5a20a1b0d3e968a9
Genome sequence FASTQ 5.22 GB 2012-12-12 MD5 checksum: ec1c908ad24aea213d44d241a0439f39
Genome sequence FASTQ 6.97 GB 2012-12-12 MD5 checksum: c6ffc7a59e0bcd70146ce71ba322f3c7
Genome sequence FASTQ 6.59 GB 2012-12-12 MD5 checksum: 4479ec68b95004fc46b6f684d5036542
Genome sequence FASTQ 6.96 GB 2012-12-12 MD5 checksum: 1b4515af1d5ac0ad83a15ce358055c8c
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Displaying 10 files of 15
Date Action
August 18, 2016 File 110112_I199_FC819BBABXX_L3_HUMiqvDBTDWAAPE_2.fq.gz removed
August 18, 2016 File removed : 110112_I199_FC819BBABXX_L3_HUMiqvDBTDWAAPE_2.fq.gz