Data descriptor: Whole genome sequencing data for two individuals of Pakistani descent

Shahid Y. Khan; Firoz Kabir; Oussama M’Hamdi; Xiaodong Jiao; Muhammad Asif Naeem; Shaheen N. Khan; Sheikh Riazuddin; J. Fielding Hejtmancik; S. Amer Riazuddin

doi:10.1038/sdata.2018.174

Data descriptor: Whole genome sequencing data for two individuals of Pakistani descent

Shahid Y. Khan, Firoz Kabir, Oussama M’Hamdi, Xiaodong Jiao, Muhammad Asif Naeem, Shaheen N. Khan, Sheikh Riazuddin, J. Fielding Hejtmancik, S. Amer Riazuddin

School of Medicine

Research output: Contribution to journal › Article

Abstract

Here we report next-generation based whole genome sequencing of two individuals (H1 and H2) from a family of Pakistani descent. The genomic DNA was used to prepare paired-end libraries for whole-genome sequencing. Deep sequencing yielded 706.49 and 778.12 million mapped reads corresponding to 70.64 and 77.81 Gb sequence data and 23 × and 25 × average coverage for H1 and H2, respectively. Notably, a total of 448,544 and 470,683 novel variants, not present in the single nucleotide polymorphism database (dbSNP), were identified in H1 and H2, respectively. Comparative analysis identified 2,415,852 variants common in both genomes including 240,181 variants absent in the dbSNP. Principal component analysis linked the ancestry of both genomes with South Asian populations. In conclusion, we report whole genome sequences of two individuals from a family of Pakistani descent.

Original language	English (US)
Article number	180174
Journal	Scientific Data
Volume	5
DOIs	https://doi.org/10.1038/sdata.2018.174
State	Published - Sep 11 2018

ASJC Scopus subject areas

Statistics and Probability
Information Systems
Education
Computer Science Applications
Statistics, Probability and Uncertainty
Library and Information Sciences

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10.1038/sdata.2018.174

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title = "Data descriptor: Whole genome sequencing data for two individuals of Pakistani descent",

abstract = "Here we report next-generation based whole genome sequencing of two individuals (H1 and H2) from a family of Pakistani descent. The genomic DNA was used to prepare paired-end libraries for whole-genome sequencing. Deep sequencing yielded 706.49 and 778.12 million mapped reads corresponding to 70.64 and 77.81 Gb sequence data and 23 × and 25 × average coverage for H1 and H2, respectively. Notably, a total of 448,544 and 470,683 novel variants, not present in the single nucleotide polymorphism database (dbSNP), were identified in H1 and H2, respectively. Comparative analysis identified 2,415,852 variants common in both genomes including 240,181 variants absent in the dbSNP. Principal component analysis linked the ancestry of both genomes with South Asian populations. In conclusion, we report whole genome sequences of two individuals from a family of Pakistani descent.",

author = "Khan, {Shahid Y.} and Firoz Kabir and Oussama M{\textquoteright}Hamdi and Xiaodong Jiao and Naeem, {Muhammad Asif} and Khan, {Shaheen N.} and Sheikh Riazuddin and Hejtmancik, {J. Fielding} and Riazuddin, {S. Amer}",

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AU - Naeem, Muhammad Asif

AU - Khan, Shaheen N.

AU - Riazuddin, Sheikh

AU - Hejtmancik, J. Fielding

AU - Riazuddin, S. Amer

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AB - Here we report next-generation based whole genome sequencing of two individuals (H1 and H2) from a family of Pakistani descent. The genomic DNA was used to prepare paired-end libraries for whole-genome sequencing. Deep sequencing yielded 706.49 and 778.12 million mapped reads corresponding to 70.64 and 77.81 Gb sequence data and 23 × and 25 × average coverage for H1 and H2, respectively. Notably, a total of 448,544 and 470,683 novel variants, not present in the single nucleotide polymorphism database (dbSNP), were identified in H1 and H2, respectively. Comparative analysis identified 2,415,852 variants common in both genomes including 240,181 variants absent in the dbSNP. Principal component analysis linked the ancestry of both genomes with South Asian populations. In conclusion, we report whole genome sequences of two individuals from a family of Pakistani descent.

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