| Data name ⇅ | Database name ⇅ | DOI ⇅ | Description of data contents ⇅ | Data file ⇅ | Simple search URL ⇅ | Data acquisition method ⇅ | Data analysis method ⇅ | Number of data entries ⇅ | Data detail |
|---|---|---|---|---|---|---|---|---|---|
| SNP List (Phase III) | D-HaploDB | 10.18908/lsdba.nbdc00036-002 |
A list of SNPs in D3 (Phase III). The data is essentially the same as those described in Kukita et al. (2010) paper, but contains additional samples (CHM010 and CHM035) because their data were judged to be acceptable with regard to genotypes, though they were excluded at QC steps in the previous report. LD bins were then determined. |
dhaplo_d3_snp_list.zip
(23.9MB) |
http://togodb.biosciencedbc.jp/togodb/view/dhaplo_d3_snp_list#en |
Affymetrix SNP 6.0 |
A hundred complete hydatidiform moles (CHMs) were genotyped using Affymetrix SNP Array 6.0, and mapped on the human reference genome sequence, NCBI Build 36. Low log2R calls, calls judged to be in deleted regions (determined by CNV analysis), and heterozygous calls were forced to no calls, as described in the Kukita paper. After QCs by sample call rate and SNP call rate, the final data for 87 CHMs (876K SNPs) was obtained. See "LD bin List" for the calculation of LD bins. |
876,399 entries |
Data detail
open_in_full
|
| BLOCKS - PDB ATOM matching | DB-SPIRE | 10.18908/lsdba.nbdc00411-008 |
Sequence numbers of PDB entries/chains whose ATOM matches a BLOCKS entry |
dbspire_blocks_pdb_atom.zip
(6.2 MB) |
http://togodb.biosciencedbc.jp/togodb/view/dbspire_blocks_pdb_atom#en |
BLOCKS, PDB |
word search, motif search |
824,198 entries |
Data detail
open_in_full
|
| BLOCKS - PDB matching | DB-SPIRE | 10.18908/lsdba.nbdc00411-006 |
PDB entries/chains which matches a BLOCKS entry |
dbspire_blocks_pdb.zip
(512 KB) |
http://togodb.biosciencedbc.jp/togodb/view/dbspire_blocks_pdb#en |
BLOCKS, PDB |
word search, motif search |
166,232 entries |
Data detail
open_in_full
|
| BLOCKS - PDB SEQRES matching | DB-SPIRE | 10.18908/lsdba.nbdc00411-007 |
Sequence numbers of PDB entries/chains whose SEQRES matches a BLOCKS entry |
dbspire_blocks_pdb_seq.zip
(6.4 MB) |
http://togodb.biosciencedbc.jp/togodb/view/dbspire_blocks_pdb_seq#en |
BLOCKS, PDB |
word search, motif search |
858,156 entries |
Data detail
open_in_full
|
| BLOCKS Information | DB-SPIRE | 10.18908/lsdba.nbdc00411-005 |
It shows BLOCKS entries and PDB entry/chain matching status. |
dbspire_blocks_info.zip
(305 KB) |
http://togodb.biosciencedbc.jp/togodb/view/dbspire_blocks_list#en |
BLOCKS |
word search, motif search |
29,068 entries |
Data detail
open_in_full
|
| Data name | Database name | DOI | Description of data contents | Data file | Simple search URL | Data acquisition method | Data analysis method | Number of data entries | Data detail |
List of Data Metadata