Species-specific resources
Manfred G. Grabherr
Overview
- Permissions to use data
- Resources:
- Genomes et al.
- Browsers et al.
- Software
The Fort Lauderdale Agreement
Specifically:
• Large-insert clone-based projects: DNA sequence assemblies of 2 kb or
greater are to be deposited in a public nucleotide sequence database
(GenBank, EMBL or DDBJ) within 24 hours of generation. Sequence traces
from these projects are to be deposited in a trace archive (NCBI Trace
Repository or Ensembl Trace Server) within one week of production.
• Whole genome shotgun projects: Sequence traces from whole genome
shotgun projects are to be deposited in a trace archive (NCBI Trace
Repository or Ensembl Trace Server) within one week of production. Whole
genome assemblies are to be deposited in a public nucleotide sequence
database as soon as possible after the assembled sequence has met a set of
quality evaluation criteria.
The Fort Lauderdale Agreement
The *** sequence is made freely available before scientific publication with the
following understanding:
1. The data may be freely downloaded, used in analyses, and repackaged in
databases.
2. Users are free to use the data in scientific papers analyzing particular genes
and regions if the providers of these data (the Broad Institute) are properly
acknowledged.
3. The centers producing the data reserve the right to publish the initial largescale analyses of the data set, including large-scale identification of regions of
evolutionary conservation and large-scale genomic assembly. Large-scale
refers to regions with size on the order of a chromosome (that is, 30 Mb or
more).
Any redistribution of the data should carry this notice.
The Fort Lauderdale Agreement
The *** sequence is made freely available before scientific publication with the
following understanding:
1. The data may be freely downloaded, used in analyses, and repackaged in
databases.
2. Users are free to use the data in scientific papers analyzing particular genes
and regions if the providers of these data (the Broad Institute) are properly
acknowledged.
3. The centers producing the data reserve the right to publish the initial largescale analyses of the data set, including large-scale identification of regions of
evolutionary conservation and large-scale genomic assembly. Large-scale
refers to regions with size on the order of a chromosome (that is, 30 Mb or
more).
Any redistribution of the data should carry this notice.
 In case of doubt, ASK!!
Species resources
- FlyBase (drosophila)
Wormbase (nematodes)
Vectorbase (mosquitoes etc.)
phytozome.net (plants)
popgenie.org (populus)
Software resources
- The Broad Institute
- Beijing Genome Institute
- Sourceforge.net
Summary
- Many resources exist
- Google
- PubMed
Questions?