Contents
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1. Home |
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☺ Home: Welcome to Sinbase2.0; News in Sinbase2.0; Flowchart for
Multi-Omics Data Integration; Genome Version; Summary;
Statistics of Visitors.
Resource: Genomics; Genetics Linkage Analysis; Comparative Genomics; Transcriptomics Analysis; Proteomics Analysis.
Tools: General Search; Advanced Search; MISAweb; Genome Browser.
Document: Statistics; Links; Publications.
Help: Download; Manual.
FAQ: FAQ.
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2. Genomics |
2.1 Genome Components |
☺Users can click
chromosome bar to get the basic information of interested
chromosomes in Sesamum indicum genome. When the mouse moved on the
scope of chromosome bar, the system will popup a tooltip and then users can
click the corresponding scope of interested chromosomes to get corrsponding
genome components.
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2.2 Functional Annotation |
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☺Users can click the
numbers which were added hyperlinks to get the annotated genes by public
open-resource databases and the involved terms from public open-resource
databases. From this section, users can get the function of interested genes
or the gene sets from the same terms from public open-resource databases.
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3. Genetics Linkage Analysis |
3.1 SLAF Linkage Group |
☺Users can click the
gene list to get upstream and downstream flanking genes of corresponding
sesame SLAF markers by GBrowse software. |
3.2 Bin Map |
☺Users can click the
gene list to get upstream and downstream flanking genes of corresponding
sesame bin by GBrowse software. |
3.3 SSR Linkage Group |
☺ Users can click the
interested chromosome to get the list of SSR markers in corresponding
chromosomes in Sesamum indicum genome. After getting the list of SSR
markers, users can get basic information of each SSR marker in Sesamum
indicum genome.
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4. Comparative Genomics |
4.1 Intra-species Comparison |
☺Users can click the
numbers which were added hyperlinks to get the list of anchored scaffolds or
contigs from Sesamum indicum var. Yuzhi11, Swetha, Baizhima and
Mishuozhima on the chromosomes in Sesamum indicum var. Zhongzhi13
genome. After getting the list of anchored scaffolds or contigs from other
varieties, users can get basic information of each anchored scaffold or
contig on the chromosomes in Sesamum indicum genome.
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4.2 Interspecies Comparison |
☺Users
can click the numbers which were added hyperlinks to get interested
collinear genomic regions about interspecies comparative genomics analysis
in Arabidopsis thaliana, Vitis vinifera, Solanum tuberosum,
Solanum lycopersicum, Sorghum bicolor, Oryza sativa
compared with Sesamum indicum genomes. After getting the list of
collinear genomic regions among 6 species with Sesamum indicum
genome, users can get basic information of each collinear genomic region
between Sesamum indicum and another one genome.
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5. Genomic Variation Analysis |
5.1 SNP Annotation |
☺Users
can select two ways to get SNP information on different sesame chromosomes
including setting ranges and scales on chromosome. |
6. Transcriptomics Analysis |
6.1 Waterlogging Resistance |
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Users can click the numbers which were added hyperlinks to get expression
values of expressed genes among different samples in Sesamum indicum
under waterlogging resistance. For co-expression analysis, users can click
the scope of co-expressed block to get co-expressed genes under waterlogging
resistance.
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6.2 Drought Tolerance |
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Users can click the numbers which were added hyperlinks to get expression
values of expressed genes among different samples in Sesamum indicum
under drought tolerance. For co-expression analysis, users can click the
scope of co-expressed block to get co-expressed genes under drought
tolerance.
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6.3 Three Color Seeds |
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Users can click the numbers which were added hyperlinks to get expression
values of expressed genes among different color seeds in Sesamum indicum.
For co-expression analysis, users can click the scope of co-expressed block
to get co-expressed genes from different color seeds.
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6.4 Determinate and Indeterminate |
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Users can click the numbers which were added hyperlinks to get expression
values of expressed genes among different samples in Sesamum indicum.
For co-expression analysis, users can click the scope of co-expressed block
to get co-expressed genes from different phenotypes of determinate and
indeterminate growth habits in Sesamum indicum.
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6.5 Seed Development |
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Users can click the numbers which were added hyperlinks to get expression
values of expressed genes among different samples in Sesamum indicum.
For co-expression analysis, users can click the scope of co-expressed block
to get co-expressed genes from different samples.
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7. Proteomics Analysis |
7.1 Salt Tolerance |
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Users can click the numbers which were added hyperlinks to get expression
quantifications of expressed proteins among different samples in Sesamum
indicum. For protein-protein interaction analysis, users can click the
"Interactive network" to get interactive networks from different samples.
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8. Markers, Genes and QTLs |
8.1 Functional Markers |
☺Users can click the
locaton to get upstream and downstream flanking genes of corresponding
sesame functional marker by GBrowse software. |
8.2 Functional Genes
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☺Users can click the
gene name to get detail information of corresponding sesame functional
gene in Sinbase2.0. |
8.3 Functional QTLs
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☺Users can click the
locaton to get gene list containing corresponding sesame functional QTL by
GBrowse software. |
Help>>Manual: