Literature DB >> 31702008

Database Resources of the National Genomics Data Center in 2020.

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Abstract

The National Genomics Data Center (NGDC) provides a suite of database resources to support worldwide research activities in both academia and industry. With the rapid advancements in higher-throughput and lower-cost sequencing technologies and accordingly the huge volume of multi-omics data generated at exponential scales and rates, NGDC is continually expanding, updating and enriching its core database resources through big data integration and value-added curation. In the past year, efforts for update have been mainly devoted to BioProject, BioSample, GSA, GWH, GVM, NONCODE, LncBook, EWAS Atlas and IC4R. Newly released resources include three human genome databases (PGG.SNV, PGG.Han and CGVD), eLMSG, EWAS Data Hub, GWAS Atlas, iSheep and PADS Arsenal. In addition, four web services, namely, eGPS Cloud, BIG Search, BIG Submission and BIG SSO, have been significantly improved and enhanced. All of these resources along with their services are publicly accessible at https://bigd.big.ac.cn.
© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

Entities:  

Mesh:

Year:  2020        PMID: 31702008      PMCID: PMC7145560          DOI: 10.1093/nar/gkz913

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  31 in total

1.  MethBank 3.0: a database of DNA methylomes across a variety of species.

Authors:  Rujiao Li; Fang Liang; Mengwei Li; Dong Zou; Shixiang Sun; Yongbing Zhao; Wenming Zhao; Yiming Bao; Jingfa Xiao; Zhang Zhang
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

2.  PGG.SNV: understanding the evolutionary and medical implications of human single nucleotide variations in diverse populations.

Authors:  Chao Zhang; Yang Gao; Zhilin Ning; Yan Lu; Xiaoxi Zhang; Jiaojiao Liu; Bo Xie; Zhe Xue; Xiaoji Wang; Kai Yuan; Xueling Ge; Yuwen Pan; Chang Liu; Lei Tian; Yuchen Wang; Dongsheng Lu; Boon-Peng Hoh; Shuhua Xu
Journal:  Genome Biol       Date:  2019-10-22       Impact factor: 13.583

3.  Rice Expression Database (RED): An integrated RNA-Seq-derived gene expression database for rice.

Authors:  Lin Xia; Dong Zou; Jian Sang; Xingjian Xu; Hongyan Yin; Mengwei Li; Shuangyang Wu; Songnian Hu; Lili Hao; Zhang Zhang
Journal:  J Genet Genomics       Date:  2017-05-04       Impact factor: 4.275

4.  Community Curation and Expert Curation of Human Long Noncoding RNAs with LncRNAWiki and LncBook.

Authors:  Lina Ma; Jiabao Cao; Lin Liu; Zhao Li; Huma Shireen; Nashaiman Pervaiz; Fatima Batool; Rabail Z Raza; Dong Zou; Yiming Bao; Amir A Abbasi; Zhang Zhang
Journal:  Curr Protoc Bioinformatics       Date:  2019-09

5.  NPInter v3.0: an upgraded database of noncoding RNA-associated interactions.

Authors:  Yajing Hao; Wei Wu; Hui Li; Jiao Yuan; Jianjun Luo; Yi Zhao; Runsheng Chen
Journal:  Database (Oxford)       Date:  2016-04-17       Impact factor: 3.451

6.  Europe PMC in 2017.

Authors:  Maria Levchenko; Yuci Gou; Florian Graef; Audrey Hamelers; Zhan Huang; Michele Ide-Smith; Anusha Iyer; Oliver Kilian; Jyothi Katuri; Jee-Hyub Kim; Nikos Marinos; Rakesh Nambiar; Michael Parkin; Xingjun Pi; Frances Rogers; Francesco Talo; Vid Vartak; Aravind Venkatesan; Johanna McEntyre
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

7.  The BIG Data Center: from deposition to integration to translation.

Authors: 
Journal:  Nucleic Acids Res       Date:  2016-11-28       Impact factor: 16.971

8.  JBrowse: a dynamic web platform for genome visualization and analysis.

Authors:  Robert Buels; Eric Yao; Colin M Diesh; Richard D Hayes; Monica Munoz-Torres; Gregg Helt; David M Goodstein; Christine G Elsik; Suzanna E Lewis; Lincoln Stein; Ian H Holmes
Journal:  Genome Biol       Date:  2016-04-12       Impact factor: 13.583

9.  Editome Disease Knowledgebase (EDK): a curated knowledgebase of editome-disease associations in human.

Authors:  Guangyi Niu; Dong Zou; Mengwei Li; Yuansheng Zhang; Jian Sang; Lin Xia; Man Li; Lin Liu; Jiabao Cao; Yang Zhang; Pei Wang; Songnian Hu; Lili Hao; Zhang Zhang
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

10.  Whole Genome Analyses of Chinese Population and De Novo Assembly of A Northern Han Genome.

Authors:  Zhenglin Du; Liang Ma; Hongzhu Qu; Wei Chen; Bing Zhang; Xi Lu; Weibo Zhai; Xin Sheng; Yongqiao Sun; Wenjie Li; Meng Lei; Qiuhui Qi; Na Yuan; Shuo Shi; Jingyao Zeng; Jinyue Wang; Yadong Yang; Qi Liu; Yaqiang Hong; Lili Dong; Zhewen Zhang; Dong Zou; Yanqing Wang; Shuhui Song; Fan Liu; Xiangdong Fang; Hua Chen; Xin Liu; Jingfa Xiao; Changqing Zeng
Journal:  Genomics Proteomics Bioinformatics       Date:  2019-09-05       Impact factor: 7.691

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  81 in total

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Authors:  Xianjun Zhu; Mu Yang; Peiquan Zhao; Shujin Li; Lin Zhang; Lulin Huang; Yi Huang; Ping Fei; Yeming Yang; Shanshan Zhang; Huijuan Xu; Ye Yuan; Xiang Zhang; Xiong Zhu; Shi Ma; Fang Hao; Periasamy Sundaresan; Weiquan Zhu; Zhenglin Yang
Journal:  J Clin Invest       Date:  2021-03-15       Impact factor: 14.808

2.  Vitamin C Deficiency Causes Cell Type-Specific Epigenetic Reprogramming and Acute Tubular Necrosis in a Mouse Model.

Authors:  Zihui Yu; Ziying Xu; Yuan Liang; Pengbin Yin; Yue Shi; Jiayi Yu; Junfeng Hao; Ting Wang; Weimin Ci
Journal:  J Am Soc Nephrol       Date:  2022-01-04       Impact factor: 10.121

3.  Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022.

Authors: 
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

4.  Evaluation of the Sequence Variability within the PCR Primer/Probe Target Regions of the SARS-CoV-2 Genome.

Authors:  Kashif Aziz Khan; Peter Cheung
Journal:  Bio Protoc       Date:  2020-12-20

5.  Nanopore Sequencing and Hi-C Based De Novo Assembly of Trachidermus fasciatus Genome.

Authors:  Gangcai Xie; Xu Zhang; Feng Lv; Mengmeng Sang; Hairong Hu; Jinqiu Wang; Dong Liu
Journal:  Genes (Basel)       Date:  2021-05-06       Impact factor: 4.096

6.  Transcriptomics-based drug repositioning pipeline identifies therapeutic candidates for COVID-19.

Authors:  Brian L Le; Gaia Andreoletti; Tomiko Oskotsky; Albert Vallejo-Gracia; Romel Rosales; Katharine Yu; Idit Kosti; Kristoffer E Leon; Daniel G Bunis; Christine Li; G Renuka Kumar; Kris M White; Adolfo García-Sastre; Melanie Ott; Marina Sirota
Journal:  Sci Rep       Date:  2021-06-10       Impact factor: 4.379

7.  Reconstruction of the full-length transcriptome of cigar tobacco without a reference genome and characterization of anion channel/transporter transcripts.

Authors:  Hui Zhang; Jingjing Jin; Guoyun Xu; Zefeng Li; Niu Zhai; Qingxia Zheng; Hongkun Lv; Pingping Liu; Lifeng Jin; Qiansi Chen; Peijian Cao; Huina Zhou
Journal:  BMC Plant Biol       Date:  2021-06-29       Impact factor: 4.215

8.  Single-nucleotide methylation specifically represses type I interferon in antiviral innate immunity.

Authors:  Zheng-Jun Gao; Wen-Ping Li; Xin-Tao Mao; Tao Huang; Hao-Li Wang; Yi-Ning Li; Bao-Qin Liu; Jiang-Yan Zhong; Chai Renjie; Jin Jin; Yi-Yuan Li
Journal:  J Exp Med       Date:  2021-03-01       Impact factor: 14.307

9.  FOSL2 Is Involved in the Regulation of Glycogen Content in Chicken Breast Muscle Tissue.

Authors:  Xiaojing Liu; Lu Liu; Jie Wang; Huanxian Cui; Guiping Zhao; Jie Wen
Journal:  Front Physiol       Date:  2021-07-06       Impact factor: 4.566

10.  Whole-exome sequencing of alpha-fetoprotein producing gastric carcinoma reveals genomic profile and therapeutic targets.

Authors:  Jun Lu; Yongfeng Ding; Yanyan Chen; Junjie Jiang; Yiran Chen; Yingying Huang; Mengjie Wu; Chengzhi Li; Mei Kong; Wenyi Zhao; Haohao Wang; Jing Zhang; Zhongqi Li; Yimin Lu; Xiongfei Yu; Ketao Jin; Donghui Zhou; Tianhua Zhou; Fei Teng; Haibin Zhang; Zhan Zhou; Haiyong Wang; Lisong Teng
Journal:  Nat Commun       Date:  2021-06-24       Impact factor: 14.919

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