Literature DB >> 34718731

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

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Abstract

The National Genomics Data Center (NGDC), part of the China National Center for Bioinformation (CNCB), provides a family of database resources to support global research in both academia and industry. With the explosively accumulated multi-omics data at ever-faster rates, CNCB-NGDC is constantly scaling up and updating its core database resources through big data archive, curation, integration and analysis. In the past year, efforts have been made to synthesize the growing data and knowledge, particularly in single-cell omics and precision medicine research, and a series of resources have been newly developed, updated and enhanced. Moreover, CNCB-NGDC has continued to daily update SARS-CoV-2 genome sequences, variants, haplotypes and literature. Particularly, OpenLB, an open library of bioscience, has been established by providing easy and open access to a substantial number of abstract texts from PubMed, bioRxiv and medRxiv. In addition, Database Commons is significantly updated by cataloguing a full list of global databases, and BLAST tools are newly deployed to provide online sequence search services. All these resources along with their services are publicly accessible at https://ngdc.cncb.ac.cn.
© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.

Entities:  

Mesh:

Year:  2022        PMID: 34718731      PMCID: PMC8728233          DOI: 10.1093/nar/gkab951

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


  47 in total

Review 1.  Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.

Authors:  S F Altschul; T L Madden; A A Schäffer; J Zhang; Z Zhang; W Miller; D J Lipman
Journal:  Nucleic Acids Res       Date:  1997-09-01       Impact factor: 16.971

2.  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

3.  CVTree: a phylogenetic tree reconstruction tool based on whole genomes.

Authors:  Ji Qi; Hong Luo; Bailin Hao
Journal:  Nucleic Acids Res       Date:  2004-07-01       Impact factor: 16.971

4.  The EMBL-EBI search and sequence analysis tools APIs in 2019.

Authors:  Fábio Madeira; Young Mi Park; Joon Lee; Nicola Buso; Tamer Gur; Nandana Madhusoodanan; Prasad Basutkar; Adrian R N Tivey; Simon C Potter; Robert D Finn; Rodrigo Lopez
Journal:  Nucleic Acids Res       Date:  2019-07-02       Impact factor: 16.971

5.  CompoDynamics: a comprehensive database for characterizing sequence composition dynamics.

Authors:  Shuai Jiang; Qiang Du; Changrui Feng; Lina Ma; Zhang Zhang
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

6.  CancerSCEM: a database of single-cell expression map across various human cancers.

Authors:  Jingyao Zeng; Yadong Zhang; Yunfei Shang; Jialin Mai; Shuo Shi; Mingming Lu; Congfan Bu; Zhewen Zhang; Zaichao Zhang; Yang Li; Zhenglin Du; Jingfa Xiao
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

7.  CVTree update: a newly designed phylogenetic study platform using composition vectors and whole genomes.

Authors:  Zhao Xu; Bailin Hao
Journal:  Nucleic Acids Res       Date:  2009-04-26       Impact factor: 16.971

8.  iDog: an integrated resource for domestic dogs and wild canids.

Authors:  Bixia Tang; Qing Zhou; Lili Dong; Wulue Li; Xiangquan Zhang; Li Lan; Shuang Zhai; Jingfa Xiao; Zhang Zhang; Yiming Bao; Ya-Ping Zhang; Guo-Dong Wang; Wenming Zhao
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

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

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  27 in total

1.  Comparative Genomics of Thaumarchaeota From Deep-Sea Sponges Reveal Their Niche Adaptation.

Authors:  Peng Wang; Minchun Li; Liang Dong; Cheng Zhang; Wei Xie
Journal:  Front Microbiol       Date:  2022-07-04       Impact factor: 6.064

2.  Geographic encoding of transcripts enabled high-accuracy and isoform-aware deep learning of RNA methylation.

Authors:  Daiyun Huang; Kunqi Chen; Bowen Song; Zhen Wei; Jionglong Su; Frans Coenen; João Pedro de Magalhães; Daniel J Rigden; Jia Meng
Journal:  Nucleic Acids Res       Date:  2022-10-14       Impact factor: 19.160

3.  Aberrant nucleosome organization in mouse SCNT embryos revealed by ULI-MNase-seq.

Authors:  Lingyue Yang; Xiaocui Xu; Ruimin Xu; Chuan Chen; Xiaolei Zhang; Mo Chen; Xiaochen Kou; Yanhong Zhao; Hong Wang; Xiaoyu Liu; Shaorong Gao; Chong Li
Journal:  Stem Cell Reports       Date:  2022-06-23       Impact factor: 7.294

4.  Identification and Characterization of Long Non-coding RNA in Tomato Roots Under Salt Stress.

Authors:  Ning Li; Zhongyu Wang; Baike Wang; Juan Wang; Ruiqiang Xu; Tao Yang; Shaoyong Huang; Huan Wang; Qinghui Yu
Journal:  Front Plant Sci       Date:  2022-07-04       Impact factor: 6.627

5.  Towards Strain-Level Complexity: Sequencing Depth Required for Comprehensive Single-Nucleotide Polymorphism Analysis of the Human Gut Microbiome.

Authors:  Pu Liu; Shuofeng Hu; Zhen He; Chao Feng; Guohua Dong; Sijing An; Runyan Liu; Fang Xu; Yaowen Chen; Xiaomin Ying
Journal:  Front Microbiol       Date:  2022-05-05       Impact factor: 6.064

6.  The 2022 Nucleic Acids Research database issue and the online molecular biology database collection.

Authors:  Daniel J Rigden; Xosé M Fernández
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

7.  EWAS Open Platform: integrated data, knowledge and toolkit for epigenome-wide association study.

Authors:  Zhuang Xiong; Fei Yang; Mengwei Li; Yingke Ma; Wei Zhao; Guoliang Wang; Zhaohua Li; Xinchang Zheng; Dong Zou; Wenting Zong; Hongen Kang; Yaokai Jia; Rujiao Li; Zhang Zhang; Yiming Bao
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

8.  Reassessment of Annamocarya sinesis (Carya sinensis) Taxonomy through Concatenation and Coalescence Phylogenetic Analysis.

Authors:  Jie Luo; Junhao Chen; Wenlei Guo; Zhengfu Yang; Kean-Jin Lim; Zhengjia Wang
Journal:  Plants (Basel)       Date:  2021-12-24

9.  The genome of the rice variety LTH provides insight into its universal susceptibility mechanism to worldwide rice blast fungal strains.

Authors:  Lei Yang; Mengfei Zhao; Gan Sha; Qiping Sun; Qiuwen Gong; Qun Yang; Kabin Xie; Meng Yuan; Jenny C Mortimer; Weibo Xie; Tong Wei; Zhensheng Kang; Guotian Li
Journal:  Comput Struct Biotechnol J       Date:  2022-02-10       Impact factor: 7.271

10.  Hsa_circ_0031608: A Potential Modulator of VSMC Phenotype in the Rupture of Intracranial Aneurysms.

Authors:  Chuanchuan Wang; Yin Luo; Haishuang Tang; Yazhou Yan; Xiaozan Chang; Rui Zhao; Qiang Li; Pengfei Yang; Bo Hong; Yi Xu; Qinghai Huang; Jianmin Liu
Journal:  Front Mol Neurosci       Date:  2022-03-11       Impact factor: 5.639

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