SNP-NEXUS.ORG

SNP Annotation Tool

Single Query - Genomic Position. Single Query - Chromosomal Region. Single Query - dbSNP rs#. Paste in your query (upto 100K SNPs/InDels):. Please specify a file (upto 100K SNPs/InDels). Maximum 3 at a time). Effect of Non-synonymous Coding SNPs on Protein Function. Conserved Transcription Factor Binding Sites (TFBS). First-Exon and Promoter Prediction (FirstEF). Vista HMR-Conserved Non-coding Human Enhancers. TargetScan miRNA Regulatory Sites. Vertebrate Alignment and Conservation (PHAST).

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SNP Annotation Tool | snp-nexus.org Reviews

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Single Query - Genomic Position. Single Query - Chromosomal Region. Single Query - dbSNP rs#. Paste in your query (upto 100K SNPs/InDels):. Please specify a file (upto 100K SNPs/InDels). Maximum 3 at a time). Effect of Non-synonymous Coding SNPs on Protein Function. Conserved Transcription Factor Binding Sites (TFBS). First-Exon and Promoter Prediction (FirstEF). Vista HMR-Conserved Non-coding Human Enhancers. TargetScan miRNA Regulatory Sites. Vertebrate Alignment and Conservation (PHAST).

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SNP Annotation Tool | snp-nexus.org Reviews

https://snp-nexus.org

Single Query - Genomic Position. Single Query - Chromosomal Region. Single Query - dbSNP rs#. Paste in your query (upto 100K SNPs/InDels):. Please specify a file (upto 100K SNPs/InDels). Maximum 3 at a time). Effect of Non-synonymous Coding SNPs on Protein Function. Conserved Transcription Factor Binding Sites (TFBS). First-Exon and Promoter Prediction (FirstEF). Vista HMR-Conserved Non-coding Human Enhancers. TargetScan miRNA Regulatory Sites. Vertebrate Alignment and Conservation (PHAST).

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snp-nexus.org

1

SNP Annotation Tool

http://www.snp-nexus.org/citation.html

If you use SNPnexus in your work and/or publication(s), please cite:. 1] Claude Chelala, Arshad Khan and Nicholas R Lemoine, SNPnexus: A web database for functional annotation of newly discovered and public domain Single Nucleotide Polymorphisms. 2] Abu Z Dayem Ullah, Nicholas R Lemoine and Claude Chelala, SNPnexus: a web server for functional annotation of novel and publicly known genetic variants (2012 update).

2

SNP Annotation Tool

http://www.snp-nexus.org/news.html

May 2014: Database update. A complete update operation has been performed to the whole underlying database of SNPnexus, as described below:. Ensembl Variation 54;dbSNP 129. Ensembl Variation 74;dbSNP 138. Vega 34;UCSC hg18. Vega 43;UCSC hg19. SIFT Human DB (release 63). PolyPhen-2 (Ensembl Variation 63). January 2014: Database update. Data source for underlying COSMIC annotation category has been updated from COSMIC version 56 to version 67. October 2013: Database update. March 2013: Database update.

3

SNP Annotation Tool

http://www.snp-nexus.org/guide.html

Variant Call Format (VCF) File. Effect on Protein Function. Phenotype and Disease Association. Currently SNPnexus supports the two most recent human genome assemblies:. The underlying SNPnexus database is kept synchronised with the UCSC human genome annotation database. However, data for some annotation categories comes from different sources. Ensembl Variation 54;dbSNP 129. Ensembl Variation 74;dbSNP 138. UCSC hg18;Ensembl 54. UCSC hg19;Ensembl 74. UCSC hg18;Vega 34. UCSC hg19;Vega 43. Insertions and De...

4

SNP Annotation Tool

http://www.snp-nexus.org/index.html

Single Query - Genomic Position. Single Query - Chromosomal Region. Single Query - dbSNP rs#. Paste in your query (upto 100K SNPs/InDels):. Please specify a file (upto 100K SNPs/InDels). Maximum 3 at a time). Effect of Non-synonymous Coding SNPs on Protein Function. Conserved Transcription Factor Binding Sites (TFBS). First-Exon and Promoter Prediction (FirstEF). Vista HMR-Conserved Non-coding Human Enhancers. TargetScan miRNA Regulatory Sites. Vertebrate Alignment and Conservation (PHAST).

5

SNP Annotation Tool

http://www.snp-nexus.org/about.html

Effect on Protein Function. Phenotype and Disease Association. SNPnexus was designed to simplify and assist in the selection of functionally relevant Single Nucleotide Polymorphisms (SNP) for large-scale genotyping studies of multifactorial disorders. The tool has been upgraded in 2011 to provide additional support for multiple nucleotide substitutions and insertions/deletions (indels) covering the wider range of variation data. 1 Genomic Mapping and additional annotations. Pruitt et al., 2007), UCSC.

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nationalpancreastissuebank.org

SNP Annotation Tool

http://www.nationalpancreastissuebank.org/new.html

SNP annotation tool query options:. Please specify a file:. SNP annotation tool output:. Conserved Transcription Factor Binding Sites (TFBS). First-Exon and Promoter Prediction (FirstEF). TargetScan miRNA Regulatory Sites. MicroRNAs (miRNA Registry) / snoRNAs and scaRNAs (snoRNA-LBME-DB). Genetic Association Studies of Complex Diseases and Disorders (GAD). Copy Number Polymorphisms from BAC Microarray Analysis (Iafrate). Copy Number Polymorphisms from SNP and BAC microarrays (Redon). Barts and The London.

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SNP Annotation Tool

Single Query - Genomic Position. Single Query - Chromosomal Region. Single Query - dbSNP rs#. Paste in your query (upto 100K SNPs/InDels):. Please specify a file (upto 100K SNPs/InDels). Maximum 3 at a time). Effect of Non-synonymous Coding SNPs on Protein Function. Conserved Transcription Factor Binding Sites (TFBS). First-Exon and Promoter Prediction (FirstEF). Vista HMR-Conserved Non-coding Human Enhancers. TargetScan miRNA Regulatory Sites. Vertebrate Alignment and Conservation (PHAST).

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