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| Release 20 (Nov 4, 2009) |
- A new Marker Search has replaced our previous Gene/Locus and Molecular Diversity searches
- The new Marker Search displays maize AGPv1 physical coordinates and includes nearly 1.4 million SNPs from the Maize HapMap project (HapMap_SNPs)
- A new Introgression Search can be used to find NILs with teosinte introgressions (introgressions from NILs dervived from the NAM parents backcrossed to B73 will be added in the future)
- More than one million First Generation Maize HapMap SNPs are available for download from our Data Sets page
- NAM flowering time data from our recent Science paper are available on our Data Sets page
- You can now BLAST against the AGPv1 maize genome via our BLAST search page and link to Panzea Markers in the vicinity (including HapMap SNPs) from the BLAST results summary
- The Polymorphism Search has been restricted to inbred lines and provides AGPv1 coordinates (but, sadly, does not include the HapMap SNPs)
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| Release 19 (Jun 9, 2008) |
- Panzea is now hosted at Cornell University (formerly hosted by Cold Spring Harbor Lab)
- Our project has been renewed by the NSF under the new title 'Genetic Architecture of Maize and Teosinte' (NSF 0820619) (view proposal)
- Phenotype Search: granularity issue resolved with respect to display of teosinte phenotypes: plant identity info is now provided in addition to accession (allows phenotypes to be tied to teosinte genotypes obtained via molecular diversity search results)
- Data Sets page: download of 33 bp SNP context sequences from alignment of Mo17 454 to B73 MAGI sequences updated: now contains 126,683 SNPs
- New data:
- no new data in this release (new release expected by the end of July 2009)
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| Release 18 (Dec 5, 2008) |
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| Release 17 (June 30, 2008) |
- Gene/Locus search: NAM linkage map locations now displayed instead of inferred IBM2 neighbors positions
- Gene/Locus search: genomic positions (to the BAC level) inferred for many loci by BLAST to the maize genome sequence
- Data Sets page: raw genotypes (AA, CC, AC etc) now included in the download of NAM population genetic map and genotypes
- Molecular Diversity Search: genotypes from NAM now loaded in Panzea database
- Molecular Diversity Search: context sequences for SNP markers now all in IUPAC format
- Molecular Diversity Search / Alignment Viewer: alignments from Pioneer can now be viewed (markers with PHM prefix)
- Data Sets page: SNP context sequence files updated (all context seqs now in IUPAC style, etc)
- Phenotype search / Data Sets page: Release of phenotypic data from a second teosinte association mapping population
- New data:
- 30,340 new phenotypic data points (297,809 total)
- 5,856,172 new genotypes (8,358,317 total) from 2,632 new SNP marker assays (7,306 total)
- 6 new project publications (92 total)
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| Release 16 (February 6, 2008) |
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| Release 15 (September 7, 2007) |
- Major release of phenotypic data from our maize association mapping panel, a maize-teosinte backcross population, and a teosinte association mapping population
- Genetic means and heritabilities for 14 traits measured in the maize NAM population in 2006 available from the Data Sets page
- New geographic display of germplasm accession source locations for maize landraces and teosinte populations
- Sequence alignments, SNP context sequences and genotypic data from 640 SNPs developed by Pioneer Hybrid International from 540 genes
- Release of a large bank of isozyme data for maize landraces and teosinte collected in Major Goodman's lab
- Context sequences for various sets of functional SNP markers available from the Data Sets page
- New "Biofuels" storyboard available from the Educational Resources page
- Comprehensive Links page added
- Usage Case Scenario updated and Polymorphism Search tutorial added
- New data:
- 233,230 new phenotypic data points (267,469 total)
- 649 new sequence alignments (4,716 total)
- Context sequences for 1,449 new SNP markers (7,594 total)
- 155,119 new genotypes (2,502,145 total) from 1,429 new SNP marker assays (4,674 total)
- 374,230 new genotypes from 37 isozyme markers
- 5 new project publications (77 total)
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| Release 14 (March 6, 2007) |
- Geographic display of allele frequencies at SNPs and SSRs for maize landraces and teosinte populations
- The Maize Domestication and the History of Maize educational slide shows are now available in Spanish
- New data:
- 143 new sequence alignments (4,067 total)
- Context sequences for 15 new SNP markers (6,145 total)
- 3 new project publications (72 total)
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| Release 13 (November 24, 2006) |
- A new genetic map of 290 markers mapped in a teosinte/maize backcross population added to the Graphical Map Viewer
- All IBM2 Neighbors genetic map positions updated to the 2005 version (see Map Viewer or Gene/Locus Search
- Dynamic feedback page added
- New data:
- 364 new sequence alignments (3,924 total)
- Context sequences for 1,112 new SNP markers (6,130 total)
- 2,060,527 new genotypes (2,347,026 total) from 2,026 new SNP marker assays (3,245 total)
- 3,288 new SSR genotypes (203,057 total) from 58 new SSR marker assays (670 total)
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| Release 12 (July 31, 2006) |
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| Release 11 (April 24, 2006) |
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| Release 10 (March 20, 2006) |
- Complete SNP and SSR data dump files reorganized with more logical sorting
- Issue with duplicate genotypes appearing as "polyploids" resolved
- New data:
- Context sequences for 1,480 new SNP markers (5,018 total)
- primers added for 29 new SSR markers (520 markers in total)
- 5,467 redundant SNP genotypes removed (total reduced to 286,499)
- 1 new project publication (62 total)
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| Release 9 (27 February, 2006) |
- Updated project poster made available
- New data:
- Context sequences for 820 new SNP markers (3,538 total)
- 16,174 new SNP genotypes (291,966 total) from 234 new SNP marker assays (1,219 total)
- 239 redundant sequence alignments removed (total reduced to 3,560)
- 4 new project publications (61 total)
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| Release 8 (24 January, 2006) |
- In the Gene/Locus search, can now find genes or loci containing markers of a particular type (SNP, SSR, sequencing, etc)
- Display of genotypic data (after a Molecular Diversity Search) now organized by marker (rather than assay within marker)
- Ability to search by marker name (as well as by gene/locus name) in the Molecular Diversity Search
- Improvements made to the Alignment Viewer interface
- New data:
- Context sequences for 105 new SNP markers (2,718 total)
- 2 new project publications (57 total)
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| Release 7 (30 November, 2005) |
- Sequence trace files from Panzea alignments now available as a data dump (here)
- Gateway page added to facilitate automated interaction with Panzea search pages
- Short description of the project significance added
- New data:
- 221 new sequence alignments (3,799 total)
- Context sequences for 644 new SNP markers (2,613 total)
- 2 new project publications (55 total)
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| Release 6 (17 October, 2005) |
- Google search of Panzea site added
- Site software (underlying the search pages, etc -- generic for the GDPDM database schema) made available for download here
- New data:
- 36 new sequence alignments (3,578 total)
- Context sequences for 146 new SNP markers (1,969 total)
- 1 new project publication (53 total)
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| Release 5 (31 August, 2005) |
- FAQ page added
- Glossary page added
- Complex sorts now possible on output of search pages (e.g., see the Gene/Locus Search)
- Modification of the Alignment Viewer to allow filtering of sequences by germplasm type (maize inbred, teosinte, Tripsacum, etc.)
- New data:
- 361 new sequence alignments (3,542 total)
- Context sequences for 817 new SNP markers (1,823 total)
- 42,296 new genotypes (275,792 total) from 157 new SNP marker assays (985 total)
- 140,325 new SSR genotypes (200,276 total) from 467 new SSR marker assays (612 total)
- 7 new project publications (52 total)
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| Release 4 (2 March, 2005) |
- Alignment Viewer added
- Germplasm Search page added
- Gene/Locus Search page added
- Phenotype Search page added
- Available Data:
- Access to 3,181 sequence alignments containg maize inbred line, maize landrace, teosinte and/or Tripsacum sequences
- Context sequences for 1,006 SNP markers
- 233,496 genotypes from 828 SNP marker assays
- 59,951 genotypes from 145 SSR marker assays
- 34,124 phenotypic datapoints
- 7 new project publications (45 total)
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| Next release (anticipated date: June 30, 2010) |
- More efficient storage, retrieval and display of Maize HapMap SNP genotypes with direct links to TASSEL & FLAPJACK analysis and display tools
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