Field Name
(No case sensitivity)
|
Type |
Description |
| [ACC] |
string |
Search by accession
Example: [ACC]="AC000120" |
| [CHR] |
string |
Search by chromosome
Available values ( 1-22, X, Y, and Un (unknown))
Example: [CHR]="2" <--Require quotes |
| [FXN] |
integer |
Search by function class
Available function [FXN] class:
| [FXN] |
Description |
| 1 |
locus-region |
| 2 |
coding |
| 3 |
coding-synon |
| 4 |
coding-nonsynon |
| 6 |
mRNA-5' and 3' UTR |
| 6 |
intron |
| 7 |
splice-site |
| 8 |
reference |
| 9 |
exception |
Example:
[FXN] = 1
Example: [FXN] = in (1,3,4,9)
Example: [FXN] = between 1 and 4 |
[GENE]
|
string |
Search by gene symbol
Example: [gene]="IGF1" |
| [HET] |
real |
Search by heterozygosity (range 0.0 to
1.0)
Example: [HET] = 0.4
Example: [HET] between 0.3 and 0.4 |
| [LOCUS_ID] |
integer |
Search by LocusLink ID
Example: [LOCUS_ID] = 4023 |
| [ORGN] |
string |
Search by organism, wildcard "*" supported only as
first or/and last symbol. Search using [TAXID]
is faster than this field.
Available organisms [ORGN]:
Homo sapiens
Mus musculus
Pan troglodytes
Pan paniscus
Gorilla gorilla
Arabidopsis Thaliana
Plasmodium falciparum
Rattus norvegicus
Example: [ORGN] = "Rat*"
|
| [RS] |
integer |
Search by NCBI cluster reference
ID (rs#)
Example: [RS] = 45
Example: [RS] between 45 and 100 |
| [SRATE] |
integer |
Search by success rate (range 0-100%). Success Rate is validation
probability defined as [1 - (false positive rate for experiment)]
Example: [SRATE]=90
Example: [SRATE] between 85 and 87
|
| [VALIDATED] |
string (no quotes) |
Search by validation status
Available [VALIDATED] status:
by-submitter
by-frequency
by-cluster
true
Example: [VALIDATED] = by-submitter
|
| [WEIGHT] |
integer |
Search by SNP map weight info - the number of times a SNP map
to the genome contig (range 1-10)
|
1 =
|
hit genome once, annotated on NT_ contigs |
|
2 =
|
hit genome twice, annotated on NT_ contigs
with warning |
|
3 =
|
hit genome 3-9 times, not annotated |
|
10 =
|
hit 10+ times on genome, not annotated |
Example: [WEIGHT] = 1 |
| [TAXID] |
integer
|
Search by organism taxonomy
ID. Please use this field to search organisms instead of [ORGN].
| Organism |
TaxID |
| Gorilla gorilla |
9595 |
| Homo sapiens |
9606 |
| Mus musculus |
10090 |
Pan paniscus
|
9597 |
| Pan troglodytes |
9598 |
| Plasmodium falciparum |
5833 |
| Rattus norvegicus |
10116 |
| Rattus sp. |
10118 |
Example: [TAXID] = 9606 |
| Wild Card |
* |
| Booleans (no case sensitivity) |
AND/and, OR/or are all supported |
| Examples
Queries |
Results |
| [fxn]="cod*" |
list of SNPs mapped to coding region |
| [acc]="AC000120" |
list of SNPs with sequences
in this GenBank record. |
| [fxn]=cod* and [acc]="AC000120" |
list of SNPs mapped to coding
region with this accession number |
| [gene] = "LPL" or
[acc]="AF050163" |
list of SNPs mapped to the
gene LPL or with this accession number |
