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| News items |
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| 22-09-2006 |
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PFSANGER array features in GBrowse
GBrowse now has an option to display the map locations of the PFSANGER
array features, a custom Affymetrix array which comprises 2,206,441
P. falciparum features. The arrays per se can be accessed
via your local Affymetrix representative, or by emailing Ricardo Mancebo, Product
Manager for the Affymetrix GeneChip CustomExpress Array Program, for
more details. If you would like to collaborate on a PFSANGER-based
project, please contact Al Ivens.
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| 18-09-2006 |
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Data Version 2.1.2
Annotation/reannotation
Surfin gene family annotated
Reannotation of transporter proteins
New data download options - list download page
much improved user download access to sequence and allied data
user can define data fields for fasta headers or tab
delimited data. Also HTML format and save to file options.
easier access to intronic, intergenic, 5' and 3' sequence
data.
New Gene Page links
links to eukaryotic orthologs defined by
YOGY (Penkett et. al., 2006)
links to Malaria Parasite
Metabolic Pathways. Thanks to Prof. Hagai Ginsburg and team.
Each gene page now has a link to its corresponding entry in
PlasmoDB
OrthoMCL ( Li et. al. 2003) has been
used to calculate orthologs and parologous relationships between 3D7, P.
knowlesi,, P.chabaudi, P. berghei and
P. vivax
Links between
orthologous and paralogs are in place for 3D7 and
P. knowlesi. OrthoMCL was kindly
provided by the PlasmoDB team.
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| 09-09-2005 |
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Data Version 2.1
Sequence updates from TIGR of chromosomes 2, 10, 11 and 14. Includes annotation of sequence repeats.
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| 05-09-2005 |
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GENOME BROWSER
The GENOME BROWSER offers a convenient and rapid way to view and search the genome
The search function searches the annotation in the gene product and also the curation fields. The search results are graphically summarised for results on all chromosomes.
The sequence of any region, as defined by its coordinates, can be downloaded in FASTA format
Please direct your views on the GENOME BROWSER to technical or curator feeback.
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| 02-05-2005 |
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Data Version2
This data freeze will be useful a useful reference point for
sequence updates and annotation changes made since the publication of the genome (Version1)
Versions will be FTP archived so that users can more easily track data changes
Data updates are reflected in both GeneDB and PlasmoDB
Application of new approaches to gene prediction, and assessment of
accuracy of current gene predictions using:
SNAP, a new gene prediction algorithm
comparison of regions of conserved synteny (TBLASTX comparison to ordered
contigs of P. knowlesi and P. yoelii)
- All exon/intron boundaries checked
- Details of all new,
modified and
removed gene models since publication (Oct 2002)
This information is available in tab delimited and excel files FTP
Summary
170 new genes,
120 from new sequence data (14 on chr6, 40 on chr7, 24 on chr8 and 42 on chr13)
50 from new gene prediction and comparative analysis
97 gene models modified
20 gene models removed
- Version 2 Excel/tabdelim summary of genome annotation (systematic_id:coordinates:product) with hyperlinks to GeneDB gene pages
FTP
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| 10-01-2005 |
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chr7 updated. Now in 2
contigs, 150 kb of new sequence annotated. 43 new gene predictions. |
| 10-01-2005 |
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chr8 updated. Now in 2 contigs, 165 kb of new sequence
annotated |
| 13-09-2004 |
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chr13 updated. Now in 5
contigs, 165 kb of new sequence annotated |
| 25-07-2004 |
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GPI anchor annotation. To
search for genes with GPI anchor motifs select 'GPI anchor' from the
Boolean query drop down menu |
| 18-04-2004 |
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Annotation for merozoite
surface proteins added |
| 17-03-2004 |
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Browseable Contig/Chromosome maps linked
to geneDB pages added
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| 25-02-2004 |
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Annotation and literature
links added to VAR, RIFIN and STEVOR gene families |
| 12-02-2004 |
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Chromosome summaries added to project pages |
| 25-11-2003 |
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Cross-links from geneDB pages to MR4
clones, antibodies, PCR primers and oligonucleotides integrated. To search
for genes with MR4 resources insert MR4 into the 'Full content' search box on the
Plasmodium falciparum GeneDB homepage |
| 5-11-2003 |
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Chr 6 remapped and reannotated, and new gene names
applied to conform to a standard scheme that will be applied to all finished chromosomes. For a mapping
of new to old names
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