The validation phase introduced a new proteomic dataset (M = 19) which, together with dataset 1, formed dataset 2. The new M samples derived from a neurological study of amyotrophic lateral sclerosis (ALS) patients not affected by neuropathic pain (Conti et al., 2008).
Moreover, the findings of recent studies would suggest the joint investigation of future SNP datasets together with our dataset of 138 "gold standard" microsatellites may afford future studies a more complete view of intergroup relationships than can be obtained from analyses of either marker type alone [ 54, 122, 123].
The implemented webserver, together with the datasets used in this study, is freely available for academic use at http://csbio.njust.edu.cn/bioinf/TargetGDrug.edu.cn/bioinf/TargetGDrug
The prediction server is available online, together with reference datasets and supplementary materials.
A web server, together with reference datasets and supplementary materials, can be accessed at http://www.casbase.org/grasvm/index.html.html
Comparative genomic approaches together with functional datasets will be critical for the development of assays that specifically target pathogenic Francisella strains.
The R script implementing our method together with the datasets used in the study can be downloaded here (http://bioinfo-out.curie.fr/projects/targetrunningsum).fr/projects/targetrunningsum
Availability and implementation: The software package is available under GNU General Public License v3 and is freely available together with test datasets https://savannah.nongnu.org/projects/bammds/.
The software is open-source and can be downloaded (together with example datasets) at http://code.google.com/p/palm-siever.
As pointed out above, it is a possible to use DOTUR with patristic distances if these are calculated from a tree with tools such as phydist from PHYLOCOM, PATRISTIC (which should not be used together with larger datasets due to memory limitations) or RAMI.
The lists of subject IDs for the training and testing sets are available, together with the dataset.
