Simple Map Search

Handy reference for determining what are the most current maps and for understanding the content of the various Neighbors maps.

If you are looking for particular map markers, use the locus search.

This search form allows you to just enter a name or partial name to quickly retrieve the desired map.

(see a sample map query)

    (upper limit on results is 2,000 records)

Other interesting searches include Genetic (locates our genetic maps) and SSR (finds maps assembled using SSRs)

This search can be executed on every page on the site by utilizing the form in the upper right corner. Choose "map" from the drop-down menu, enter your search term in the field, and hit return to find the map you're looking for.



Advanced Map Search

Are you looking for core bin markers?

Set Up Search Criteria

Check the boxes next to the fields you want to search; by setting a criterion, the box will be checked for you. Only checked boxes will have that criterion evaluated.

that contain (for example, you could find maps with kn1) (AND)
that contain (for example, you could find maps with tub1) (AND)
that contain
of :
from :
from :

 
    (upper limit on results is 2,000 records)

Map Reports & Tools

SNPversity: This tool allows you to search for SNPs and compare them in thousands of inbred lines.

Incongruencies between B73 RefGen_v2 and ISU Integrated IBM 2009 map : This tool lists loci that are placed on B73 RefGen_v2 by sequence similarity (via BLAST),and compares that position to their predicted genomic position based on their genetic position on the ISU Integrated IBM 2009 map.


A list of all maps can be found here: (chromosome 1 2 3 4 5 6 7 8 9 10 )


Here are some of the more popular complete maps.

Consensus maps

Genetic (lg. 1 2 3 4 5 6 7 8 9 10)
IBM Neighbors (lg. 1 2 3 4 5 6 7 8 9 10): Genes placed by recombinational and physical data.


High resolution maps

Mixed Markers (RFLP, SSR, SNP, INDEL):

IBM2 (chrom. 1 2 3 4 5 6 7 8 9 10): Intermated B73/Mo17, a high resolution genetic map
IBM GNP2004 (chrom. 1 2 3 4 5 6 7 8 9 10): Genetic map from Genoplante.
ISU Integrated IBM 2009 (chrom. 1 2 3 4 5 6 7 8 9 10)
LHRF Gnp2004 (chrom. 1 2 3 4 5 6 7 8 9 10): High-resolution genetic map from Genoplante.
NAM (chrom. 1 2 3 4 5 6 7 8 9 10): Nested Association Mapping (NAM) for maize

SNP - MaizeSNP50 array based:

IBM MaizeSNP50 (chrom. 1 2 3 4 5 6 7 8 9 10)
LHRF MaizeSNP50 (chrom. 1 2 3 4 5 6 7 8 9 10)
Cornfed Dent Composite (chrom. 1 2 3 4 5 6 7 8 9 10)
Cornfed Flint Composite (chrom. 1 2 3 4 5 6 7 8 9 10)


Physical Map: View the physical map from the Maize Mapping Project (at www.genome.arizona.edu)
Recombination Nodule Maps: Map containing data on the distribution of recombination nodules along pachytene synaptonemal complexes can be used to predict cytological locations of genetically mapped loci and vice versa using the Morgan2McClintock Translator


Map Score Downloads

IBM 94 population list of lines, cIBM map scores (on-frame only), IBM GNP 2004 map scores (complete set), and a MapMaker infile (which includes all markers in MaizeGDB that have been mapped using the IBM 94 population and also includes the ISU-IBM Map4 IDP markers).
IBM 302 population list of lines, map scores, and QTL Cartographer files.


Discussion of Map Data for the General Public