Soybean small RNA JSON Web Services

• website: General information on this website/db.
• library: List of libraries included in this website/db.
• expression: Expression data summary of this website/db.
• genomic: Genomic data summary of this website/db.
• organism: General information on this organism.
• chromosome: List of chromosome values used in this website/db.
• strand: Strand values used in all our websites/dbs.
• organism-list: List of organisms we offer as websites/dbs.
• website-list: List of websites/dbs we offer (by organism).

• Chromosome Information: A given chromosome's data from our chromosome master table.
• Chromosome Sequence: A given chromosome's strand-specific sequence in a given region (complemented but not reversed on the c strand).
• Gene List: List of genes existing in a given region.
• Gene Information: A given gene's basic information.
• Exon & UTR Information: List of exons and UTRs for a given gene.
• Gene, Exon & UTR List: List of genes existing in a given region, including their basic information and lists of their exons and UTRs.
• Repeats: List of repeats and their data existing in a given region.
• Inverted Repeats: List of inverted repeats and their data existing in a given region.
• Tandem Repeats: List of tandem repeats and their data existing in a given region.
• Phased Loci: List of phased loci existing in a given region.
• Kmer: Kmer data in a given region.

• Read List: List of reads existing in a given region.
• Abundance List: List of reads existing in a given region and their library-specific abundance values.
• Abundance Summary: Summary of abundance sums and distinct counts of the reads existing in a given region by libraries.
• Phasing Analysis Read List: List of reads existing in a given region for phasing analysis.
• Phasing Analysis Window List - top strand: List of phasing analysis windows existing in a given region (on top strand).
• Phasing Analysis Window List - bottom strand: List of phasing analysis windows existing in a given region (on bottom strand).

The following links are HTML pages that allow the user to view their outputs as JSON (valid search parameters may need to be entered/selected first).

• Gene/IGR Analysis: Sum of abundance & count of distinct reads for a gene/IGR.
• small RNA Information: List of gene/IGR-specific reads and expression data.
• Signature Analysis: Genomic information of the read; expression data for the read.
• Bulk Signature Analysis: List of reads and expression data for a group of reads.
• Keyword Search: List of genes or repeats for a keyword.
• Phasing Analysis: Phasing information of a window; list of reads and phasing data for a window.
• miRNA Abundances: List of miRNAs and expression data.
• Library Information: List of basic metadata, read counts, etc.