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Welcome to SorGSD Sorghum genome SNP database. Collecting 62 million SNPs from 48 sorghum accessions. Summary lists of SNP data and their annotations. Synonymous and non-synonymous SNPs. Geographic origins and breeding information of individual samples. SNP Visualization in the genome browser. SNPs comparison among several samples. All datasets are downloadable. And Beijing Institute of Genomics. 2013-2015, Version 1.0, June 2015.

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Welcome to SorGSD Sorghum genome SNP database. Collecting 62 million SNPs from 48 sorghum accessions. Summary lists of SNP data and their annotations. Synonymous and non-synonymous SNPs. Geographic origins and breeding information of individual samples. SNP Visualization in the genome browser. SNPs comparison among several samples. All datasets are downloadable. And Beijing Institute of Genomics. 2013-2015, Version 1.0, June 2015.
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1 sorghum genome
2 resources
3 references
4 browse
5 total snps
6 genic snp
7 coding snp
8 synonymous snp
9 nonsynonymous snp
10 browse on chromosome
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sorghum genome,resources,references,browse,total snps,genic snp,coding snp,synonymous snp,nonsynonymous snp,browse on chromosome,compare,download,how to,faqs,pipeline,data statistics,features,publications,institute of botany
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Home | SorGSD | sorgsd.big.ac.cn Reviews

https://sorgsd.big.ac.cn

Welcome to SorGSD Sorghum genome SNP database. Collecting 62 million SNPs from 48 sorghum accessions. Summary lists of SNP data and their annotations. Synonymous and non-synonymous SNPs. Geographic origins and breeding information of individual samples. SNP Visualization in the genome browser. SNPs comparison among several samples. All datasets are downloadable. And Beijing Institute of Genomics. 2013-2015, Version 1.0, June 2015.

INTERNAL PAGES

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1

Contact | Help | SorGSD

http://sorgsd.big.ac.cn/snp/pages/about/SorghumGenome.jsp

Information about Sorghum Genome. The homozygous genotype BTx623 of Sorghum bicolor was sequenced in 2009 by Paterson, et al. and taken as the reference genome in our database. You may read the Abstract. In PubMed, or the Full Paper. Which is freely accessible in Nature. You may also download the PDF. File of this paper. Here are some facts about the sorghum reference genome. Number of chromosomes: 10 ( 2n=20. Number of protein-coding genes: 33,000 (Average length: 2,856bp). Sorghum shares 9503 gene fami...

2

Home | SorGSD

http://sorgsd.big.ac.cn/snp/index.jsp

Welcome to SorGSD Sorghum genome SNP database. Collecting 62 million SNPs from 48 sorghum accessions. Summary lists of SNP data and their annotations. Synonymous and non-synonymous SNPs. Geographic origins and breeding information of individual samples. SNP Visualization in the genome browser. SNPs comparison among several samples. All datasets are downloadable. And Beijing Institute of Genomics. 2013-2015, Version 1.0, June 2015.

3

User Guide | Help | SorGSD

http://sorgsd.big.ac.cn/snp/pages/help/howtos.jsp

How to find SNP information from SorGSD. We try to provide an easy to use web interface to browse, search and compare SNPs in SorGSD. If you are not familiar with these functionalities, please go through the following examples step by step,. To get some feelings how to use this database. Example 1: How to find non-synonymous. SNPs in chromosome 1 of sweet sorghum E-Tian? Move over your mouse to the Browse button in the top of the main page to show a pull-down menu. You will see the details of this SNP in...

4

Genic SNPs | Browse | SorGSD

http://sorgsd.big.ac.cn/snp/pages/statistics/sta_gene.jsp

Distribution of genic SNPs on each chromosome. S bicolor subsp. drummondii (PI330272). S bicolor subsp. verticilliflorum (PI300119). S bicolor subsp. verticilliflorum (AusTRCF 317961). And Beijing Institute of Genomics. 2013-2015, Version 1.0, June 2015.

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About | Help | SorGSD

http://sorgsd.big.ac.cn/snp/pages/help/individual_source.jsp

The geographic location of the samples are marked on the Google Map. References of Data Source. Whole-genome sequencing reveals untapped genetic potential in Africa's indigenous cereal crop sorghum. Mace E S, Tai S, Gilding E K, et al. Nature communications, 2013, 4. doi:10.1038/ncomms3320. Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor). Zheng L Y, Guo X S, He B, et al. Genome biology, 2011, 12(11): R114. doi:10.1186/gb-2011-12-11-r114.

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AlzBase

http://alz.big.ac.cn/alzBase/correlationIdrch.Job

Eb service for B. Parallel Alignment and back-. Eb service for B. Entrez ID * required. One id per line. Chinese Academy of Sciences. No1 Beichen West Road, Chaoyang District, Beijing 100101, China.

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AlzBase

http://alz.big.ac.cn/alzBase/Document

Eb service for B. Parallel Alignment and back-. Eb service for B. Several layers of information have been integrated in AlzBase. Information regarding gene expressionincludes Alzheimer’s disease (AD), non-dementia, related diseases and aging. Information regarding correlation with disease severity includes cortical atrophy, Braak stage, MMSE and NFT scores. Other annotation information comes from Allen brain atlas, GWAS catalogue, eQTL studies and CTD drug database.Inaddition, gene-gene c...Publically av...

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Genome Variation Map

http://bigd.big.ac.cn/gvm

The Genome Variation Map (GVM; Version 1.0) is a data portal of genome variations, including single nucleotide polymorphisms (SNP) and small insertions and deletions, with particular focuses on human and domesticated species. GVM is open-access and public available for worldwide scientific communities. Any user can download data from GVM and query all variants by variant effect, gene name, chromosome location, trait ontology, study project, etc. Domesticated Animals and Plants. J Murray; 1868. Ling Y, Ji...

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AlzBase

http://alz.big.ac.cn/alzBase/summary/net4s

Eb service for B. Parallel Alignment and back-. Eb service for B. Networks of Top Genes. Figure IV. Co-PatternMeta Network of the 141 genes in AD brain by using multiple expression and genetics materials. This is a network that indicated expression and genetics similarity of the 141 genes, and you can download the materials by click here. 1) node color: blue stands for the gene from Alzheimer gwas project; orange stands for the top 109 degs. 4) There are 120 nodes and 830 edges in this network.

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AlzBase

http://alz.big.ac.cn/alzBase/upload.Job

Eb service for B. Parallel Alignment and back-. Eb service for B. We always welcome users' feedback to help us improve the AlzBase. If you have any comments or suggestions, please let us know through the form below. Chinese Academy of Sciences. No1 Beichen West Road, Chaoyang District, Beijing 100101, China.

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AlzBase

http://alz.big.ac.cn/alzBase/tutorial

Eb service for B. Parallel Alignment and back-. Eb service for B. Gene official symbol or Entrezgene ID is required while retrieving information from AlzBase.Four tyeps of gene queries are available in AlzBase (Figure.1). A) Single gene query. Figure 1 Data access of AlzBase. Search result is summaried in a smart table that with sort function and filter function, which is shown on 'result web page' (Figure.2). And the title of the table is abbreviation. Figure 2 Search result example of AlzBase. To searc...

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AlzBase

http://alz.big.ac.cn/alzBase/advanceSymrch.Job

Eb service for B. Parallel Alignment and back-. Eb service for B. Fold change and p value. Detail of fold change and pval. Aging brains (part 1). Aging brains (part 2). Entorhinal Cortex Brain Region. Early stage of AD. Late stage of AD. Minimum mental state examination. Braak stage of AD. Drug and targets in AD. Allen Brain Institute Human Experiment. Gene - eSNP study (eQTL experiment). Genetic Association Analysis (GWAS catalog). Chinese Academy of Sciences.

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Home | SorGSD

Welcome to SorGSD Sorghum genome SNP database. Collecting 62 million SNPs from 48 sorghum accessions. Summary lists of SNP data and their annotations. Synonymous and non-synonymous SNPs. Geographic origins and breeding information of individual samples. SNP Visualization in the genome browser. SNPs comparison among several samples. All datasets are downloadable. And Beijing Institute of Genomics. 2013-2015, Version 1.0, June 2015.

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