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Open Access Method

ngLOC: an n-gram-based Bayesian method for estimating the subcellular proteomes of eukaryotes

Brian R King12 and Chittibabu Guda23*

Author Affiliations

1 Department of Computer Science, State University of New York at Albany, Washington Ave, Albany, New York 12222, USA

2 Gen*NY*sis Center for Excellence in Cancer Genomics, State University of New York at Albany, Discovery Drive, Rensselaer, New York 12144-3456, USA

3 Department of Epidemiology and Biostatistics, State University of New York at Albany, Discovery Drive, Rensselaer, New York 12144-3456, USA

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Genome Biology 2007, 8:R68  doi:10.1186/gb-2007-8-5-r68

Published: 1 May 2007

Additional files

Additional data file 1:

Provided are all of the formulas used for performance measurements and Supplementary Tables 1-21.

Format: DOC Size: 528KB Download file

This file can be viewed with: Microsoft Word Viewer

Open Data

Additional data file 2:

Provided is the actual ngLOC dataset. It is a FASTA formatted file. The header format for each sequence is > SP_name loc [/loc2], where SP_name is the Swiss-Prot name of the protein sequence, from release 50.0, loc is a single letter representing subcellular localization for this sequence, and/loc2 is an optional field that exists only if the sequence is multi-localized. The letter codes for subcellular localization are as follows: C (CYT), cytoplasm; K (CSK), cytoskeleton[E (END), endoplasmic reticulum; S (EXC), extracellular/secreted; G (GOL), Golgi; L (LYS), lysosome; M (MIT), mitochondria; N (NUC), nucleus; P (PLA), plasma membrane; X (POX), perixosome.

Format: TXT Size: 25.2MB Download file

Open Data