This request type allows to display the mapped loci and all the associated informations.
You must first select one or more species. Then, you must select one or more maps and choose the type of request.

The request types are:

1. Search by loci / region informations
You can select a Locus Name, a Linkage Group, a Reliability or/and a goal of the marker to restrict the Loci search. Then they are four strategies:
• You choose any options. To search only with a Locus Name, a Linkage Group, a Reliability or/and a goal.
• You choose an option:
  1. Region around the loci selected.

  To search only the loci around the locus name selected.

  2. Region between two loci.

  To search only the loci between two loci.

  You can restrict the search with a Locus name, a Linkage Group, a Reliability or/and a goal fields.

  3. Region between two positions.

  To search only the loci between two position.

  You can restrict the search with the Locus name, Linkage Group, Reliability or/and goal fields.

The options b and c search all the loci having a confidence interval overlapping included in the interval defined by:

• The two loci (the a option)
• The "from/to" (the b option)
2. Search by marker / sequence informations

You can restrict the Loci search with three information types:

• Sequence informations : Sequence name, Contig name and Gene Function.
• Marker informations : Marker Name, Marker Type and Goal of the marker.
• Loci assignment informations : Linkage Group and Reliability.

The Sequence Name and the Gene Function fields authorize several values separated by "::" .

For the Maize only , you can restrict your search with the target (a Genoplante project code) and the contact name.

You can limit or not the number of columns in the result table whit the option "Limited set of column" (yes/no).
At the end of each form, there is one button:

• Results : To display the query results to the Loci results page.

This request type allows to display the QTL and all the associated informations.

You must first select one or more species. Then, you must select one or more maps and choose the type of request.

The following searches are possible:

1. Search by trait and by experimentation informations
To search QTL by different properties:
• Qtl name
• Theme
• Traits
• Genoplante classification
• Keywords
• The LOD score of the QTL assignment
• The R2 of the QTL assignment
• The Detection threshold of the QTL detection
• The experiment name
• The linkage group of the QTL assignment
2. Search by loci informations

To search QTLs having in their confidence interval the locus defined by the locus name.

The locus name is mandatory.

You can restrict the search by a Theme, a Trait, a Keyword, The LOD score or the R2.

At the end of each form, there is one button:

• Results : To display the query results to the QTL results page.

This request type allows to display the MetaQTL and all the associated informations.

First you can restrict the search by taxon.

Then, you can select one or more maps, or you can search MetaQTL by name. If you don't know his name you can restrict the with the proximal and the distal marker name. Then, you can choose the type of request.

The following searches are possible:

1. Search by meta-trait
To search MetaQTL by different properties:
• Meta-trait
• Meta-analysis name
• Contact who's made the meta-analysis
• QTLs used
• The linkage group of the QTL assignment
2. Search by QTLs belonging to MetaQTL
• QTL name
• MetaQTL belonging between 0 and 1

At the end of each form, there is one button:

• Results : To display the query results to the MetaQTLs page.

This request type allows to display the markers and all the associated informations. You can use the following fields:

• Marker name: the name of an interest marker. [CASE SENSITIVE].
• Sequence name: the name of an interest sequence. [CASE SENSITIVE].
• Contig name: the name of an interest contig. [CASE SENSITIVE].
• Anchored clone name: the name of an interest clone name, which has been anchored by a marker. [CASE SENSITIVE].
• Gene function: use the 'List' link to choose in the available function list. The chosen function will automatically be completed on the query form. [CASE SENSITIVE, WILCARDS].
• Taxon(s): choose one or more taxons from the displayed list.
• Marker origin: restrict on the marker origin, choose one origin from the displayed list.
• Goal: restrict on the marker goal, choose one goal from the displayed list.
• Project code: restrict on an associated project.

At the end of the form, there is one button:

• Results: To display the query results to the Marker results page.

This request type allows to display the pools and all the associated informations. You can use the following fields:

• Pool projects: restrict on one or more associated pool projects.
• Anchoring projects: restrict on one or more associated anchoring projects.
• Pool sets: restrict on one or more associated pool sets.
• Marker name: restrict on the name of an interest marker. [CASE SENSITIVE].
• Results type: choose the wanted result type.

At the end of the form, there is one button:

• Results: To display the query results to the pool results page.

This query is composed by 3 steps which will allow to restrict your search on crosslinks.

1. Crosslink types

• Ref. value: enter a crosslink value. [CASE SENSITIVE, MANDATORY].
• Ref. type: choose one crosslink type.

2. Crosslink databases

• Database: you can now restrict on the given databases (one or more).

3. Crosslink names

• Ref. name: you can now restrict on the given names (one or more).

At the end of the form, there is one button:

• Results: To display the query results to the Crosslink results page.

This request type allows to display a Map and all the associated informations.

It 's the quickest way to get a database summary content.

You must select one or more species to restrict the map search.

At the end of the form, there is one button:

• Results : To display the query results to the Map results page.

This request type allows to display the traits and all the associated informations.

You can search Trait by different informations:

• Trait name
• Species
• Theme
• Genoplante classification
• Keywords

At the end of the form, there is one button:

• Results : To display the query results to the Trait results page.

This request type allows to execute a BLAST 2.0 against two different databanks.

• A mapping sequence databank.

The result is a typical BLAST result but the sequence name is a link to a sequence information page of the mapping interface.

• A mapping contig databank.

The result is a typical BLAST result but the sequence name is a link to the Sequence results page (under construction).

This request type allows to restrict a colocalization search of two types:

• A Loci colocalization search if you have clickes on the "Select Loci" button from QTL results page
• A QTL colocalization search if you have clickes on the "Select QTL" button from Loci results page.

1. Loci : Search by marker / sequence informations

You can restrict the Loci colocalization search with two information types.

• Sequence informations : Sequence name, Contig name and Gene Function.
• Marker informations : Marker Name, Marker Type and Goal of the marker.

The Sequence Name and the Gene Function fields authorize several values seperated by "::" .

For the Maize only , you can restrict your search with the target (a Genoplante project code).

You can limit the number of columns in the result table whit the option "Limited set of column" .

2. QTL: Search by trait and by experimentation informations
You can restrict the QTL colocalization search by different informations:
• Theme
• Traits
• Genoplante classification
• Keywords
• The LOD score of the QTL assignment
• The R2 of the QTL assignment
• The Detection threshold of the QTL detection
• The experiment name

At the end of each form, there is two buttons:

• Results : To display the results in the QTL results page or the Loci results page.
• Graphical display : To have a graphical representation (Loci and QTL) in the applet viewer.