Tools

DATA EXPLORER

DATA EXPLORER :

This interface allows researchers to query, explore and analyze the data for various diseases : autism, bipolar disorder, schizophrenia, Alzheimer's disease, depression, obsessive compulsive disorder, anorexia nervosa and also the controls data. The disease can be selected from the menu on the left. In future, the user will be able to query across diseases and data sets from various sources.

NewVideo of Data Explorer in action.

SPOT

SPOT - SNP PRIORITIZTATION ONLINE TOOL

a web‐based program that prioritizes the results of a genetic association study using genomic annotation data. SPOT works by first a accepting list of SNPs and (optionally) the p‐values from an initial association study from the users. The user then specifies a list of high priority genes. The extent of priority can be indicated on a per gene basis using a numeric prioritization score. The program then returns the original list of SNPs that are ranked according to a combination of the evidence for association and the extent of biological relevance. That is, instead of ranking the SNPs solely by p‐value with the smallest p‐values at the top, SNPs in user‐specified genes will tend to move to the top of the list with properties such as missense mutations having even greater priority. SPOT is based on the Genomic Information Network (GIN) method introduced by Saccone and colleagues.

NewVideo of SPOT in action.

dbSNP-Q

dbSNP-Q

is a tool for querying human data from the dbSNP relational database (tools for working with other organisms can be found in the downloads section). The purpose is to retrieve data in a tabular format for a variety tasks such as genomic mapping, SNP/gene functional properties and allele frequency data, as well as information on the underlying experiments. You may enter a variety of search terms including SNP IDs, gene symbols, gene search terms and entire genomic intervals, followed by either a prefedined query or custom MySQL query. See our dbDoc tool for detailed information on individual tables and columns.

BioQ

BioQ

BioQ provides query and documentation tools for genomic relational databases. Our documentation tools provide detailed information on several levels including methods for tracing experimental process flow and determining the experimental source of the data.

dbSNP-Q

PEDIGREE PLOTTING SERVICE

A web‐based tool to provide scientits with a way to generate pedigree images in bulk in an easy and automated fashion.

SURVEY

WEBSITE SURVEY: If you are using the nimhgenetics.org website to download data, or using one of the tools to analyse the data we would love to hear from you. Please take this short survey and let us know your comments.

dbGap Tools

dbGap tools is a utility that joins data from the CGSMD distribution data with data from dbGap. The utility uses the CELL ID from both the input files to merge the data together. This way users get mapping between CELL ID, NIMH ID, and DBGAP ID. In addition, dbGap tools also allows users to update phenotypic assignment in a FAM file. The tool creates a copy of the FAM file and replace phenotypic assignments. The tool can read the new phenotypic assignments from a user specified 'new assignments file', or from the CGSMD distribution data files.

Rutgers University Rutgers University USC Information Sciences Institute Washington University in St.Louis National Institute of Mental Health