diff options
Diffstat (limited to 'sql/schema.sql')
| -rw-r--r-- | sql/schema.sql | 2406 |
1 files changed, 2406 insertions, 0 deletions
diff --git a/sql/schema.sql b/sql/schema.sql new file mode 100644 index 0000000..c37754b --- /dev/null +++ b/sql/schema.sql @@ -0,0 +1,2406 @@ +-- This is a work-in-progress schema for the GeneNetwork database. The +-- GeneNetwork database has no foreign key constraint information. This schema +-- has them manually added. But, the work is not complete, and there may be +-- errors. A visualization of this schema can be found in schema.png and +-- schema.svg. + +-- MySQL dump 10.16 Distrib 10.1.41-MariaDB, for debian-linux-gnu (x86_64) +-- +-- Host: localhost Database: db_webqtl +-- ------------------------------------------------------ +-- Server version 10.5.8-MariaDB-log + +/*!40101 SET @OLD_CHARACTER_SET_CLIENT=@@CHARACTER_SET_CLIENT */; +/*!40101 SET @OLD_CHARACTER_SET_RESULTS=@@CHARACTER_SET_RESULTS */; +/*!40101 SET @OLD_COLLATION_CONNECTION=@@COLLATION_CONNECTION */; +/*!40101 SET NAMES utf8mb4 */; +/*!40103 SET @OLD_TIME_ZONE=@@TIME_ZONE */; +/*!40103 SET TIME_ZONE='+00:00' */; +/*!40014 SET @OLD_UNIQUE_CHECKS=@@UNIQUE_CHECKS, UNIQUE_CHECKS=0 */; +/*!40014 SET @OLD_FOREIGN_KEY_CHECKS=@@FOREIGN_KEY_CHECKS, FOREIGN_KEY_CHECKS=0 */; +/*!40101 SET @OLD_SQL_MODE=@@SQL_MODE, SQL_MODE='NO_AUTO_VALUE_ON_ZERO' */; +/*!40111 SET @OLD_SQL_NOTES=@@SQL_NOTES, SQL_NOTES=0 */; + +-- +-- Table structure for table `AccessLog` +-- + +DROP TABLE IF EXISTS `AccessLog`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `AccessLog` ( + `id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `accesstime` datetime NOT NULL DEFAULT '0000-00-00 00:00:00', + `ip_address` char(20) NOT NULL DEFAULT '0.0.0.0', + PRIMARY KEY (`id`) +) ENGINE=MyISAM AUTO_INCREMENT=1366832 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `AvgMethod` +-- + +DROP TABLE IF EXISTS `AvgMethod`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `AvgMethod` ( + `Id` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `AvgMethodId` int(5) DEFAULT NULL, + `Name` char(30) NOT NULL DEFAULT '', + `Normalization` varchar(30) DEFAULT NULL, + PRIMARY KEY (`Id`) +) ENGINE=MyISAM AUTO_INCREMENT=28 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `BXDSnpPosition` +-- + +DROP TABLE IF EXISTS `BXDSnpPosition`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `BXDSnpPosition` ( + `id` int(11) NOT NULL AUTO_INCREMENT, + `Chr` char(2) DEFAULT NULL, + `StrainId1` int(11) DEFAULT NULL, + `StrainId2` int(11) DEFAULT NULL, + `Mb` double DEFAULT NULL, + `Mb_2016` double DEFAULT NULL, + PRIMARY KEY (`id`), + FOREIGN KEY (StrainId1) REFERENCES Strain(Id), + FOREIGN KEY (StrainId2) REFERENCES Strain(Id), + KEY `BXDSnpPosition` (`Chr`,`StrainId1`,`StrainId2`,`Mb`) +) ENGINE=MyISAM AUTO_INCREMENT=7791982 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `CaseAttribute` +-- + +DROP TABLE IF EXISTS `CaseAttribute`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `CaseAttribute` ( + `Id` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `Name` varchar(30) NOT NULL DEFAULT '', + PRIMARY KEY (`Id`) +) ENGINE=MyISAM AUTO_INCREMENT=34 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `CaseAttributeXRef` +-- + +DROP TABLE IF EXISTS `CaseAttributeXRef`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `CaseAttributeXRef` ( + `ProbeSetFreezeId` smallint(5) unsigned NOT NULL DEFAULT 0, + `StrainId` smallint(5) unsigned NOT NULL DEFAULT 0, + `CaseAttributeId` smallint(5) NOT NULL DEFAULT 0, + `Value` varchar(100) NOT NULL DEFAULT '', + PRIMARY KEY (`ProbeSetFreezeId`,`StrainId`,`CaseAttributeId`), + FOREIGN KEY (ProbeSetFreezeId) REFERENCES ProbeSetFreeze(Id), + FOREIGN KEY (StrainId) REFERENCES Strain(Id), + FOREIGN KEY (CaseAttributeId) REFERENCES CaseAttribute(Id) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `CaseAttributeXRefNew` +-- + +DROP TABLE IF EXISTS `CaseAttributeXRefNew`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `CaseAttributeXRefNew` ( + `InbredSetId` smallint(5) unsigned NOT NULL DEFAULT 0, + `StrainId` int(8) unsigned NOT NULL DEFAULT 0, + `CaseAttributeId` smallint(5) NOT NULL DEFAULT 0, + `Value` varchar(100) NOT NULL DEFAULT '', + PRIMARY KEY (`InbredSetId`,`StrainId`,`CaseAttributeId`), + FOREIGN KEY (InbredSetId) REFERENCES InbredSet(InbredSetId), + FOREIGN KEY (StrainId) REFERENCES Strain(Id), + FOREIGN KEY (CaseAttributeId) REFERENCES CaseAttribute(Id) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `CeleraINFO_mm6` +-- + +DROP TABLE IF EXISTS `CeleraINFO_mm6`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `CeleraINFO_mm6` ( + `Id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `SNPID` char(14) NOT NULL DEFAULT '', + `chromosome` char(3) DEFAULT NULL, + `MB_UCSC` double DEFAULT NULL, + `MB_celera` double DEFAULT NULL, + `allele_B6` char(4) DEFAULT NULL, + `allele_D2` char(4) DEFAULT NULL, + `allele_AJ` char(4) DEFAULT NULL, + `B6_D2` char(1) DEFAULT NULL, + `B6_AJ` char(1) DEFAULT NULL, + `D2_AJ` char(1) DEFAULT NULL, + `MB_UCSC_OLD` double DEFAULT NULL, + `allele_S1` char(4) DEFAULT NULL, + `allele_X1` char(4) DEFAULT NULL, + `flanking5` char(100) DEFAULT NULL, + `flanking3` char(100) DEFAULT NULL, + PRIMARY KEY (`Id`), + KEY `celeraIndex` (`chromosome`,`MB_celera`), + KEY `celeraIndex2` (`chromosome`,`MB_UCSC`), + KEY `chromosome_2` (`chromosome`,`MB_UCSC`), + KEY `MB_UCSC_2` (`MB_UCSC`,`chromosome`), + KEY `SNPID` (`SNPID`) +) ENGINE=MyISAM AUTO_INCREMENT=3028848 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `Chr_Length` +-- + +DROP TABLE IF EXISTS `Chr_Length`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `Chr_Length` ( + `Name` char(3) NOT NULL DEFAULT '', + `SpeciesId` smallint(5) unsigned NOT NULL DEFAULT 0, + `OrderId` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `Length` int(10) unsigned NOT NULL DEFAULT 0, + `Length_2016` int(10) unsigned NOT NULL DEFAULT 0, + `Length_mm8` int(10) unsigned DEFAULT NULL, + UNIQUE KEY `nameIdx` (`SpeciesId`,`Name`), + UNIQUE KEY `SpeciesIdx` (`SpeciesId`,`OrderId`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `DBList` +-- + +DROP TABLE IF EXISTS `DBList`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `DBList` ( + `Id` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `DBTypeId` smallint(5) unsigned NOT NULL DEFAULT 0, + `FreezeId` smallint(5) unsigned NOT NULL DEFAULT 0, + `Name` char(50) NOT NULL DEFAULT '', + `Code` char(50) DEFAULT NULL, + PRIMARY KEY (`Id`), + UNIQUE KEY `Cde` (`Code`), + FOREIGN KEY (DBTypeId) REFERENCES DBType(Id), + KEY `DBIndex` (`DBTypeId`,`FreezeId`) +) ENGINE=MyISAM AUTO_INCREMENT=907 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `DBType` +-- + +DROP TABLE IF EXISTS `DBType`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `DBType` ( + `Id` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `Name` char(30) NOT NULL DEFAULT '', + PRIMARY KEY (`Id`) +) ENGINE=MyISAM AUTO_INCREMENT=4 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `DatasetMapInvestigator` +-- + +DROP TABLE IF EXISTS `DatasetMapInvestigator`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `DatasetMapInvestigator` ( + `Id` mediumint(9) NOT NULL AUTO_INCREMENT, + `DatasetId` int(6) NOT NULL, + `InvestigatorId` int(6) NOT NULL, + PRIMARY KEY (`Id`) +) ENGINE=MyISAM AUTO_INCREMENT=2403 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `DatasetStatus` +-- + +DROP TABLE IF EXISTS `DatasetStatus`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `DatasetStatus` ( + `DatasetStatusId` int(5) NOT NULL, + `DatasetStatusName` varchar(20) DEFAULT NULL, + UNIQUE KEY `DatasetStatusId` (`DatasetStatusId`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `Dataset_mbat` +-- + +DROP TABLE IF EXISTS `Dataset_mbat`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `Dataset_mbat` ( + `id` int(11) NOT NULL AUTO_INCREMENT, + `switch` int(1) DEFAULT NULL, + `species` varchar(255) DEFAULT NULL, + `cross` varchar(255) DEFAULT NULL, + `tissue` varchar(255) DEFAULT NULL, + `database` varchar(255) DEFAULT NULL, + `database_LongName` varchar(255) DEFAULT NULL, + PRIMARY KEY (`id`) +) ENGINE=MyISAM AUTO_INCREMENT=16 DEFAULT CHARSET=utf8; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `Datasets` +-- + +DROP TABLE IF EXISTS `Datasets`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `Datasets` ( + `DatasetId` int(6) NOT NULL AUTO_INCREMENT, + `DatasetName` varchar(255) DEFAULT NULL, + `GeoSeries` varchar(30) DEFAULT NULL, + `PublicationTitle` longtext DEFAULT NULL, + `Summary` longtext DEFAULT NULL, + `ExperimentDesign` longtext DEFAULT NULL, + `AboutCases` longtext DEFAULT NULL, + `AboutTissue` longtext DEFAULT NULL, + `AboutPlatform` longtext DEFAULT NULL, + `AboutDataProcessing` longtext DEFAULT NULL, + `Contributors` longtext DEFAULT NULL, + `Citation` longtext DEFAULT NULL, + `Acknowledgment` longtext DEFAULT NULL, + `Notes` longtext DEFAULT NULL, + `InvestigatorId` int(5) NOT NULL, + `DatasetStatusId` int(5) NOT NULL, + PRIMARY KEY (`DatasetId`), + UNIQUE KEY `DatasetId` (`DatasetId`) +) ENGINE=MyISAM AUTO_INCREMENT=301 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `Docs` +-- + +DROP TABLE IF EXISTS `Docs`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `Docs` ( + `id` int(11) NOT NULL AUTO_INCREMENT, + `entry` varchar(255) NOT NULL, + `title` varchar(255) NOT NULL, + `content` text NOT NULL, + PRIMARY KEY (`id`) +) ENGINE=MyISAM AUTO_INCREMENT=10 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `EnsemblChip` +-- + +DROP TABLE IF EXISTS `EnsemblChip`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `EnsemblChip` ( + `Id` int(11) NOT NULL, + `ProbeSetSize` int(11) NOT NULL, + `Name` varchar(40) NOT NULL, + `Type` enum('AFFY','OLIGO') DEFAULT NULL +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `EnsemblProbe` +-- + +DROP TABLE IF EXISTS `EnsemblProbe`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `EnsemblProbe` ( + `Id` int(11) NOT NULL, + `ChipId` int(11) NOT NULL, + `ProbeSet` varchar(40) DEFAULT NULL, + `Name` varchar(40) DEFAULT NULL, + `length` int(11) NOT NULL, + KEY `EnsemblProbeId` (`Id`), + KEY `EnsemblProbeName` (`Name`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `EnsemblProbeLocation` +-- + +DROP TABLE IF EXISTS `EnsemblProbeLocation`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `EnsemblProbeLocation` ( + `Chr` char(2) NOT NULL, + `Start` int(11) NOT NULL, + `Start_2016` int(11) DEFAULT NULL, + `End` int(11) NOT NULL, + `End_2016` int(11) DEFAULT NULL, + `Strand` int(11) NOT NULL, + `MisMataches` int(11) DEFAULT NULL, + `ProbeId` int(11) NOT NULL, + KEY `EnsemblLocationProbeId` (`ProbeId`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GORef` +-- + +DROP TABLE IF EXISTS `GORef`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GORef` ( + `id` int(11) NOT NULL AUTO_INCREMENT, + `goterm` varchar(255) DEFAULT NULL, + `genes` text DEFAULT NULL, + PRIMARY KEY (`id`) +) ENGINE=MyISAM AUTO_INCREMENT=17510 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `Genbank` +-- + +DROP TABLE IF EXISTS `Genbank`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `Genbank` ( + `Id` varchar(20) NOT NULL DEFAULT '', + `Sequence` text DEFAULT NULL, + `SpeciesId` smallint(5) unsigned NOT NULL DEFAULT 0, + PRIMARY KEY (`Id`), + FOREIGN KEY (SpeciesId) REFERENCES Species(SpeciesId), + KEY `Id` (`Id`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneCategory` +-- + +DROP TABLE IF EXISTS `GeneCategory`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneCategory` ( + `Id` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `Name` char(255) NOT NULL DEFAULT '', + PRIMARY KEY (`Id`), + KEY `name_idx` (`Name`) +) ENGINE=MyISAM AUTO_INCREMENT=22 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneChip` +-- + +DROP TABLE IF EXISTS `GeneChip`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneChip` ( + `Id` smallint(5) unsigned NOT NULL AUTO_INCREMENT, + `GeneChipId` int(5) DEFAULT NULL, + `GeneChipName` varchar(200) DEFAULT NULL, + `Name` char(30) NOT NULL DEFAULT '', + `GeoPlatform` char(15) DEFAULT NULL, + `Title` varchar(100) DEFAULT NULL, + `SpeciesId` int(5) DEFAULT 1, + `GO_tree_value` varchar(50) DEFAULT NULL, + PRIMARY KEY (`Id`), + FOREIGN KEY (SpeciesId) REFERENCES Species(SpeciesId) +) ENGINE=MyISAM AUTO_INCREMENT=67 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneChipEnsemblXRef` +-- + +DROP TABLE IF EXISTS `GeneChipEnsemblXRef`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneChipEnsemblXRef` ( + `GeneChipId` int(11) NOT NULL, + `EnsemblChipId` int(11) NOT NULL, + FOREIGN KEY (GeneChipId) REFERENCES GeneChip(GeneChipId), + FOREIGN KEY (EnsemblChipId) REFERENCES EnsemblChip(Id) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneIDXRef` +-- + +DROP TABLE IF EXISTS `GeneIDXRef`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneIDXRef` ( + `mouse` int(11) NOT NULL DEFAULT 0, + `rat` int(11) NOT NULL DEFAULT 0, + `human` int(11) NOT NULL DEFAULT 0, + KEY `mouse_index` (`mouse`), + KEY `rat_index` (`rat`), + KEY `human_index` (`human`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneList` +-- + +DROP TABLE IF EXISTS `GeneList`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneList` ( + `SpeciesId` int(5) unsigned NOT NULL DEFAULT 1, + `Id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `GeneSymbol` varchar(15) DEFAULT NULL, + `GeneDescription` text DEFAULT NULL, + `Chromosome` varchar(10) DEFAULT NULL, + `TxStart` double DEFAULT NULL, + `TxStart_2016` double DEFAULT NULL, + `TxEnd` double DEFAULT NULL, + `TxEnd_2016` double DEFAULT NULL, + `Strand` char(1) DEFAULT NULL, + `GeneID` varchar(10) DEFAULT NULL, + `NM_ID` varchar(15) DEFAULT NULL, + `kgID` varchar(10) DEFAULT NULL, + `GenBankID` varchar(15) DEFAULT NULL, + `UnigenID` varchar(15) DEFAULT NULL, + `ProteinID` varchar(15) DEFAULT NULL, + `AlignID` varchar(10) DEFAULT NULL, + `exonCount` int(7) NOT NULL DEFAULT 0, + `exonStarts` text DEFAULT NULL, + `exonEnds` text DEFAULT NULL, + `cdsStart` double DEFAULT NULL, + `cdsStart_2016` double DEFAULT NULL, + `cdsEnd` double DEFAULT NULL, + `cdsEnd_2016` double DEFAULT NULL, + `TxStart_mm8` double DEFAULT NULL, + `TxEnd_mm8` double DEFAULT NULL, + `Strand_mm8` char(1) DEFAULT NULL, + `exonCount_mm8` int(7) DEFAULT NULL, + `exonStarts_mm8` text DEFAULT NULL, + `exonEnds_mm8` text DEFAULT NULL, + `cdsStart_mm8` double DEFAULT NULL, + `cdsEnd_mm8` double DEFAULT NULL, + `Chromosome_mm8` varchar(10) DEFAULT NULL, + `Info_mm9` text DEFAULT NULL, + `RGD_ID` int(10) DEFAULT NULL, + UNIQUE KEY `geneId` (`SpeciesId`,`Id`), + FOREIGN KEY (SpeciesId) REFERENCES Species(SpeciesId), + FOREIGN KEY (GenBankID) REFERENCES Genbank(Id), + KEY `geneSymbol` (`GeneSymbol`), + KEY `geneSymbol2` (`SpeciesId`,`GeneSymbol`), + KEY `Loc1` (`SpeciesId`,`Chromosome`,`TxStart`), + KEY `Loc2` (`SpeciesId`,`Chromosome`,`TxEnd`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneList_rn3` +-- + +DROP TABLE IF EXISTS `GeneList_rn3`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneList_rn3` ( + `id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `ProbeSet` varchar(16) DEFAULT NULL, + `geneSymbol` varchar(15) DEFAULT NULL, + `geneID` varchar(10) DEFAULT NULL, + `kgID` varchar(10) DEFAULT NULL, + `geneDescription` text DEFAULT NULL, + `genBankID` varchar(15) DEFAULT NULL, + `unigenID` varchar(15) DEFAULT NULL, + `score` int(4) DEFAULT NULL, + `qStart` int(3) DEFAULT NULL, + `qEnd` int(3) DEFAULT NULL, + `qSize` int(3) DEFAULT NULL, + `identity` varchar(7) DEFAULT NULL, + `chromosome` varchar(8) DEFAULT NULL, + `strand` char(1) DEFAULT NULL, + `txStart` double DEFAULT NULL, + `txEnd` double DEFAULT NULL, + `txSize` double DEFAULT NULL, + `span` int(7) DEFAULT NULL, + `specificity` double DEFAULT NULL, + `sequence` text DEFAULT NULL, + `flag` int(1) DEFAULT NULL, + PRIMARY KEY (`id`), + KEY `geneSymbol` (`geneSymbol`), + KEY `Loc1` (`chromosome`,`txStart`), + KEY `Loc2` (`chromosome`,`txEnd`) +) ENGINE=MyISAM AUTO_INCREMENT=14917 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneList_rn33` +-- + +DROP TABLE IF EXISTS `GeneList_rn33`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneList_rn33` ( + `id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `geneSymbol` varchar(15) DEFAULT NULL, + `txStart` double DEFAULT NULL, + `txEnd` double DEFAULT NULL, + `exonCount` int(7) DEFAULT NULL, + `NM_ID` varchar(15) DEFAULT NULL, + `chromosome` varchar(8) DEFAULT NULL, + `strand` char(1) DEFAULT NULL, + `cdsStart` double DEFAULT NULL, + `cdsEnd` double DEFAULT NULL, + `exonStarts` text DEFAULT NULL, + `exonEnds` text DEFAULT NULL, + `kgID` varchar(10) DEFAULT NULL, + PRIMARY KEY (`id`), + KEY `geneSymbol` (`geneSymbol`), + KEY `Loc1` (`chromosome`,`txStart`), + KEY `Loc2` (`chromosome`,`txEnd`) +) ENGINE=MyISAM AUTO_INCREMENT=9790 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneMap_cuiyan` +-- + +DROP TABLE IF EXISTS `GeneMap_cuiyan`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneMap_cuiyan` ( + `id` bigint(20) NOT NULL AUTO_INCREMENT, + `TranscriptID` varchar(255) DEFAULT NULL, + `GeneID` varchar(255) DEFAULT NULL, + `Symbol` varchar(255) DEFAULT NULL, + PRIMARY KEY (`id`) +) ENGINE=MyISAM AUTO_INCREMENT=10537 DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneRIF` +-- + +DROP TABLE IF EXISTS `GeneRIF`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneRIF` ( + `Id` int(10) unsigned NOT NULL DEFAULT 0, + `versionId` smallint(5) unsigned NOT NULL DEFAULT 0, + `symbol` varchar(30) NOT NULL DEFAULT '', + `PubMed_ID` varchar(255) DEFAULT NULL, + `SpeciesId` smallint(5) unsigned NOT NULL DEFAULT 1, + `comment` text DEFAULT NULL, + `email` varchar(50) DEFAULT NULL, + `createtime` datetime NOT NULL DEFAULT '0000-00-00 00:00:00', + `user_ip` varchar(20) DEFAULT NULL, + `weburl` varchar(255) DEFAULT NULL, + `initial` varchar(10) DEFAULT NULL, + `display` tinyint(4) DEFAULT 1, + `reason` varchar(100) NOT NULL DEFAULT '', + PRIMARY KEY (`Id`,`versionId`), + FOREIGN KEY (SpeciesId) REFERENCES Species(SpeciesId), + KEY `name_idx` (`symbol`), + KEY `status` (`display`), + KEY `timestamp` (`createtime`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneRIFXRef` +-- + +DROP TABLE IF EXISTS `GeneRIFXRef`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneRIFXRef` ( + `GeneRIFId` int(10) unsigned NOT NULL DEFAULT 0, + `versionId` smallint(5) unsigned NOT NULL DEFAULT 0, + `GeneCategoryId` smallint(5) unsigned NOT NULL DEFAULT 0, + PRIMARY KEY (`GeneRIFId`,`versionId`,`GeneCategoryId`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `GeneRIF_BASIC` +-- + +DROP TABLE IF EXISTS `GeneRIF_BASIC`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `GeneRIF_BASIC` ( + `SpeciesId` smallint(5) unsigned NOT NULL DEFAULT 1, + `GeneId` int(10) unsigned NOT NULL DEFAULT 0, + `symbol` varchar(255) NOT NULL DEFAULT '', + `PubMed_ID` int(10) unsigned NOT NULL DEFAULT 0, + `createtime` datetime NOT NULL DEFAULT '0000-00-00 00:00:00', + `comment` text DEFAULT NULL, + `VersionId` tinyint(3) unsigned NOT NULL AUTO_INCREMENT, + PRIMARY KEY (`GeneId`,`SpeciesId`,`createtime`,`PubMed_ID`,`VersionId`), + FOREIGN KEY (SpeciesId) REFERENCES Species(SpeciesId), + KEY `symbol` (`symbol`,`SpeciesId`,`createtime`), + FULLTEXT KEY `commts` (`comment`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; 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+/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `ProbeH2` +-- + +DROP TABLE IF EXISTS `ProbeH2`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `ProbeH2` ( + `ProbeFreezeId` smallint(5) unsigned NOT NULL DEFAULT 0, + `ProbeId` int(10) unsigned NOT NULL DEFAULT 0, + `h2` double DEFAULT NULL, + `weight` double DEFAULT NULL, + UNIQUE KEY `ProbeId` (`ProbeFreezeId`,`ProbeId`), + FOREIGN KEY (ProbeFreezeId) REFERENCES ProbeFreeze(ProbeFreezeId), + FOREIGN KEY (ProbeId) REFERENCES Probe(Id) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `ProbeSE` +-- + +DROP TABLE IF EXISTS `ProbeSE`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `ProbeSE` ( + `DataId` int(10) unsigned NOT NULL DEFAULT 0, + `StrainId` smallint(5) unsigned NOT NULL DEFAULT 0, + `error` float NOT NULL, + UNIQUE KEY `DataId` (`DataId`,`StrainId`), + FOREIGN KEY (StrainId) REFERENCES Strain(Id) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `ProbeSet` +-- + +DROP TABLE IF EXISTS `ProbeSet`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `ProbeSet` ( + `Id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `ChipId` smallint(5) unsigned NOT NULL DEFAULT 0, + `Name` varchar(100) DEFAULT NULL, + `TargetId` varchar(150) DEFAULT NULL, + `Symbol` varchar(100) DEFAULT NULL, + `description` longtext DEFAULT NULL, + `Chr` char(3) DEFAULT NULL, + `Mb` double DEFAULT NULL, + `Chr_2016` char(3) DEFAULT NULL, + `Mb_2016` double DEFAULT NULL, + `alias` longtext DEFAULT NULL, + `GeneId` varchar(20) DEFAULT NULL, + `GenbankId` varchar(1000) DEFAULT NULL, + `SNP` int(2) DEFAULT NULL, + `BlatSeq` text NOT NULL, + `TargetSeq` text DEFAULT NULL, + `UniGeneId` varchar(100) DEFAULT NULL, + `Strand_Probe` char(1) DEFAULT NULL, + `Strand_Gene` char(1) DEFAULT NULL, + `OMIM` varchar(20) DEFAULT NULL, + `comments` text NOT NULL, + `Probe_set_target_region` varchar(255) DEFAULT NULL, + `Probe_set_specificity` double DEFAULT NULL, + `Probe_set_BLAT_score` double DEFAULT NULL, + `Probe_set_Blat_Mb_start` double DEFAULT NULL, + `Probe_set_Blat_Mb_end` double DEFAULT NULL, + `Probe_set_Blat_Mb_start_2016` double DEFAULT NULL, + `Probe_set_Blat_Mb_end_2016` double DEFAULT NULL, + `Probe_set_strand` varchar(255) DEFAULT NULL, + `Probe_set_Note_by_RW` varchar(255) DEFAULT NULL, + `flag` char(1) DEFAULT NULL, + `Symbol_H` varchar(100) DEFAULT NULL, + `description_H` varchar(255) DEFAULT NULL, + `chromosome_H` char(3) DEFAULT NULL, + `MB_H` double DEFAULT NULL, + `alias_H` varchar(255) DEFAULT NULL, + `GeneId_H` varchar(20) DEFAULT NULL, + `chr_num` smallint(5) unsigned DEFAULT 30, + `name_num` int(10) unsigned DEFAULT 4294967290, + `Probe_Target_Description` varchar(225) DEFAULT NULL, + `RefSeq_TranscriptId` varchar(255) DEFAULT NULL, + `ENSEMBLGeneId` varchar(50) DEFAULT NULL, + `Chr_mm8` char(3) DEFAULT NULL, + `Mb_mm8` double DEFAULT NULL, + `Probe_set_Blat_Mb_start_mm8` double DEFAULT NULL, + `Probe_set_Blat_Mb_end_mm8` double DEFAULT NULL, + `HomoloGeneID` varchar(20) DEFAULT NULL, + `Biotype_ENS` varchar(255) DEFAULT NULL, + `ProteinID` varchar(50) DEFAULT NULL, + `ProteinName` varchar(50) DEFAULT NULL, + `UniProtID` varchar(20) DEFAULT NULL, + `Flybase_Id` varchar(25) DEFAULT NULL, + `RGD_ID` int(10) DEFAULT NULL, + `HMDB_ID` varchar(255) DEFAULT NULL, + `Confidence` int(5) DEFAULT NULL, + `ChEBI_ID` int(10) DEFAULT NULL, + `ChEMBL_ID` varchar(100) DEFAULT NULL, + `CAS_number` varchar(100) DEFAULT NULL, + `PubChem_ID` int(10) DEFAULT NULL, + `ChemSpider_ID` int(10) DEFAULT NULL, + `UNII_ID` varchar(100) DEFAULT NULL, + `EC_number` varchar(100) DEFAULT NULL, + `KEGG_ID` varchar(100) DEFAULT NULL, + `Molecular_Weight` double DEFAULT NULL, + `Nugowiki_ID` int(10) DEFAULT NULL, + `Type` varchar(255) DEFAULT NULL, + `Tissue` varchar(255) DEFAULT NULL, + `PrimaryName` varchar(255) DEFAULT NULL, + `SecondaryNames` longtext DEFAULT NULL, + `PeptideSequence` varchar(20) DEFAULT NULL, + PRIMARY KEY (`Id`), + UNIQUE KEY `ProbeSetId` (`ChipId`,`Name`), + FOREIGN KEY (HomoloGeneID) REFERENCES Homologene(HomologeneId), + KEY `Name_IDX` (`Name`), + KEY `symbol_IDX` (`Symbol`), + KEY `RefSeq_TranscriptId` (`RefSeq_TranscriptId`), + KEY `GENBANK_IDX` (`GenbankId`), + KEY `TargetId` (`TargetId`), + KEY `Position` (`Chr`), + KEY `GeneId_IDX` (`GeneId`), + FULLTEXT KEY `SEARCH_GENE_IDX` (`Symbol`,`alias`), + FULLTEXT KEY `SEARCH_FULL_IDX` (`Name`,`description`,`Symbol`,`alias`,`GenbankId`,`UniGeneId`,`Probe_Target_Description`), + FULLTEXT KEY `RefSeq_FULL_IDX` (`RefSeq_TranscriptId`) +) ENGINE=MyISAM AUTO_INCREMENT=12118724 DEFAULT CHARSET=latin1; 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+/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `PublishSE` +-- + +DROP TABLE IF EXISTS `PublishSE`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `PublishSE` ( + `DataId` int(10) unsigned NOT NULL DEFAULT 0, + `StrainId` smallint(5) unsigned NOT NULL DEFAULT 0, + `error` float NOT NULL, + UNIQUE KEY `DataId` (`DataId`,`StrainId`), + FOREIGN KEY (StrainId) REFERENCES Strain(Id) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; +/*!40101 SET character_set_client = @saved_cs_client */; + +-- +-- Table structure for table `PublishXRef` +-- + +DROP TABLE IF EXISTS `PublishXRef`; +/*!40101 SET @saved_cs_client = @@character_set_client */; +/*!40101 SET character_set_client = utf8 */; +CREATE TABLE `PublishXRef` ( + `Id` int(10) unsigned NOT NULL AUTO_INCREMENT, + `InbredSetId` smallint(5) unsigned NOT NULL DEFAULT 0, + `PhenotypeId` smallint(5) unsigned NOT NULL DEFAULT 0, + `PublicationId` smallint(5) unsigned NOT NULL DEFAULT 0, + `DataId` int(10) unsigned NOT NULL DEFAULT 0, + `mean` double DEFAULT NULL, + `Locus` char(50) DEFAULT NULL, + `LRS` double DEFAULT NULL, + `additive` double DEFAULT NULL, + `Sequence` smallint(5) unsigned NOT NULL DEFAULT 1, + `comments` text NOT NULL, + UNIQUE KEY `InbredSet` (`InbredSetId`,`Id`), + UNIQUE KEY `record` (`InbredSetId`,`PhenotypeId`,`PublicationId`,`Sequence`), + UNIQUE KEY `PhenotypeId` (`PhenotypeId`), + UNIQUE KEY `DataId` (`DataId`), + FOREIGN KEY (InbredSetId) REFERENCES InbredSet(InbredSetId), + FOREIGN KEY (PhenotypeId) REFERENCES Phenotype(Id), + FOREIGN KEY (PublicationId) REFERENCES Publication(Id), + KEY `InbredSetId` (`InbredSetId`), + KEY `Locus` (`Locus`), + KEY `PublicationId` (`PublicationId`) +) ENGINE=MyISAM DEFAULT CHARSET=latin1; 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