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Data name Database name DOI Description of data contents Data acquisition method Data analysis method Data detail
Integrated List JSNP 10.18908/lsdba.nbdc00114-005

List of  data from "Mapping Information" and "Screening Information" put together every polymorphism (unless the polymorphism is mapped on two or more chromosomes).
Derived from "Show List by Chromosome" of "Show List of SNPs" http://snp.ims.u-tokyo.ac.jp/search_list.html .

From "Screening Information" and"Mapping Information"

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Data detail open_in_full
Mapping Information JSNP 10.18908/lsdba.nbdc00114-004

Information from mapping polymorphisms on the genome.
Derived from "Dump JSNP" http://snp.ims.u-tokyo.ac.jp/map/cgi-bin/Dump/snp_region_filter.cgi .

From "Screening Information" and "Allele Frequency"

The location of the SNPs are mapped to the RefSeq (GRCh37) contig sequence, masked by MaskerAid, using BLAST with the SNP flanking sequence, after e-PCR preformed with the primers for amplification to extract their screened regions.

Data detail open_in_full
Polymorphism Sequence JSNP 10.18908/lsdba.nbdc00114-001

Information on polymorphisms (SNPs and insertions/deletions) and their flanking sequences
Derived from "Flat files" ftp://ftp.hgc.jp/pub/hgc/db/snp/imsSNP140508.fas and ftp://ftp.hgc.jp/pub/hgc/db/snp/imsIND140508.fas

From "Screening Information"

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Data detail open_in_full
Screening Information JSNP 10.18908/lsdba.nbdc00114-003

Information from polymorphism screening experiments.
Derived from "Each Type of variation Found in Location in Gene" in "Data Contributions" http://snp.ims.u-tokyo.ac.jp/data_roots.html .

Exons, promotor regions and introns selected from human genomic sequences in GenBank and RefSeq were PCR amplified using DNA from 24 (IMS-JST), 48 (RIKEN) or 40 (TJWU) individuals as templates, and sequenced with capillary sequencers.

PolyPhred was used to assist verification of SNPs by eye inspection.

Data detail open_in_full
cDNA library Table KAIKOcDNA 10.18908/lsdba.nbdc00951-005

List of Bombyx mori cDNA libraries.

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Data detail open_in_full
Data name Database name DOI Description of data contents Data acquisition method Data analysis method Data detail