Click headers to show related options input for SNP-RFLP analysis.

SNP IDs

Please input Reference SNP IDs (rs#) or Submitter SNP IDs (ss#) for SNP-RFLP analysis (the maximum load is 50)

SNP IDs:

example:

1. Single ID: (1) rs11540652, (2) rs1318703, (3) ss38341834, (4) ss1717832.
2. Multiple rs#: (1) sample1, (2) sample2, (3) sample3.
3. Multiple ss#: (1) sample1, (2) sample2, (3) sample3.
4. Mixed rs# and ss#: (1) sample1, (2) sample2, (3) sample3.

SNP Fasta Sequences

Please input SNP fasta sequences for SNP-RFLP analysis (the maximum load is 50)

SNP fasta sequences:

examples:
1. Single fasta sequence: (1) sample1, (2) sample2.
2. Multiple fasta sequences (dNTPs): (1) sample1, (2) sample2.
3. Multiple fasta sequences (IUPAC): (1) sample1, (2) sample2.
4. Special sequences: (1) in-del, (2) tri-allelic, (3) tetra-allelic.

Multiple SNPs

Please input a sequnece for SNP-RFLP analysis (the maximum load is 50)
Description:
Sequence:
examples:
1. Two SNPs: (1) dNTPs: sequence1, (2) IUPAC: sequence2.
2. Three SNPs: (1) dNTPs: sequence1, (2) IUPAC: sequence2.
3. Four SNPs: (1) dNTPs: sequence1, (2) IUPAC: sequence2.

Accession Key

SNP-RFLP analysis of the input accession no.
Organism:
Limits:
Function Class:
SNP Class:
Heterozygosity:
TaqMan: 1. Non-limit 2. SNP500Cancer 3. ABI 4. SNP500Cancer+ABI
Accession:
examples:

1. Reference SNP ID: (1) rs11540652, (2) rs28934875, (3) rs62068667, (4) rs45541837, (5) rs55863639.
2. Submitter SNP ID: (1) ss38341834, (2) ss90566964, (3) ss76882845, (4) ss38341846, (5) ss74801690.
3. Accession version: (1) NM_173728.2, (2) NP_000537.3, (3) XM_868342.2, (4) NW_876255.1, (5) NT_010718.15.
4. Gene Name: (1) TP53, (2) ASPA, (3) ARHGEF15, (4) H19, (5) TRIM16.
5. LocusLink ID: (1) 7157, (2) 443, (3) 22899, (4) 283120, (5) 10626.
6. Local SNP ID: (1) TSC0227737, (2) OMIM_191170_0010, (3) SLC6A4-014756, (4) JWB-1007419, (5) BGI_rs9909154.

Tag SNP

SNP-RFLP analysis of tag SNPs for the input region
HapMap Database:
Population: YRI: Yoruba in Ibadan, Nigeria, JPT: Japanese in Tokyo, Japan, CHB: Han Chinese in Beijing, China, CEU: CEPH (Utah residents with ancestry from northern and western Europe.
Pairwise Methods:
RSquare cut off:
MAF cut off:
Query term:
example:

1. Positions between chromosome: Chr9:690,000..730,000.
2. Accession number: NM_173728.
3. Gene Name: BRCA2.
4. ENCODE region: ENm010.

Transcript ID / miRNA

Please input transcipt ID or miRNA for SNP-RFLP analysis
miRSNP database: human mouse
Transcipt ID or miRNA:  
examples: 1. Transcipt ID: (1) NM_015658, (2) BC019034, (3) AK127333, (4) CR749296, (5) D87072.
2. miRNA: (1) miR-198, (2) miR-593, (3) miR-520a*, (4) miR-124a, (5) miR-548d.

CGAP GO

Please input transcipt ID or miRNA for SNP-RFLP analysis
CGAP database: human mouse
Chromosomes:
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
X
Y
Unknown
GO term:
examples:

1. Gene Ontology identifier: (1) 0030530, (2) 0045627, (3) 0019674, (4) 0033754, (5) 0004871.
2. Gene Ontology vocabulary term:
(1) positive regulation of interleukin-2 biosynthetic process,
(2) insulin-like growth factor binding,
(3) tryptophan 2,3-dioxygenase activity,
(4) tyrosine phosphorylation of Stat1 protein,
(5) muscarinic acetylcholine receptor signaling pathway.
3. More Gene Ontology terms reference to: CGAP GO Browser.

File Upload

Please browse a file from your computer for SNP-RFLP analysis
SNP IDs (rs# or ss#) or SNP fasta sequences file for fasta format (*.txt):  
examples:

*SNP IDs:

1. Single IDs: (1) singleID_file1, (2) singleID_file2.
2. Multiple rs#: (1) multiple_rs#_file1, (2) multiple_rs#_file2, (3) multiple_rs#_file3.
3. Multiple ss#: (1) multiple_ss#_file1, (2) multiple_ss#_file2, (3) multiple_ss#_file3.
4. Mixed rs# and ss#: (1) mixed_rs#&ss#_file1, (2) mixed_rs#&ss#_file2, (3) mixed_rs#&ss#_file3.

*SNP fasta sequences:

1. Single fasta sequence: (1) singleSeq_file1, (2) singleSeq_file2.
2. Multiple fasta sequences (dNTPs): (1) dNTPs_file1, (2) dNTPs_file2.
2. Multiple fasta sequences (IUPAC): (1) IUPAC_file1, (2) IUPAC_file2.

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