Open Access Highly Accessed Research article

An assessment on epitope prediction methods for protozoa genomes

Daniela M Resende1,2†, Antônio M Rezende4,5†, Nesley JD Oliveira4,5,6, Izabella CA Batista2, Rodrigo Corrêa-Oliveira2, Alexandre B Reis2,3 and Jeronimo C Ruiz4,7*

1 Programa de Pós-graduação em Ciências Farmacêuticas (CiPharma), Laboratório de Pesquisas Clínicas, Escola de Farmácia, Universidade Federal de Ouro Preto, Campus Morro do Cruzeiro, Ouro Preto, MG, 35400-000, Brazil

2 Laboratório de Imunologia Celular e Molecular, Instituto René Rachou, Av. Augusto de Lima, 1715, Barro Preto, Belo Horizonte, MG, 30190-002, Brazil

3 Laboratório de Imunopatologia, Núcleo de Pesquisas em Ciências Biológicas, Universidade Federal de Ouro Preto, Campus Morro do Cruzeiro, ICEB II, Ouro Preto, MG, 35400-000, Brazil

4 Laboratório de Parasitologia Celular e Molecular, Instituto René Rachou, Av. Augusto de Lima, 1715, Barro Preto, Belo Horizonte, MG 30190-002, Brazil

5 Departamento de Bioquímica e Imunologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Av. Antônio Carlos, Pampulha, 6627, 31270-901, Belo Horizonte, MG, Brazil

6 Pontifícia Universidade Católica, R. Rio Comprido, 4580, Monte Castelo, Contagem, MG, 32285-040, Brazil

7 Centro Universitário UNA, Instituto de Ciências Biológicas e da Saúde (ICBS), R. Guajajaras, 175, Centro, Belo Horizonte, MG 30180-100, Brazil

For all author emails, please log on.

BMC Bioinformatics 2012, 13:309 doi:10.1186/1471-2105-13-309

Published: 21 November 2012

Additional files

Additional file 1:

Epitopes predicted by NetCTL. This file in fasta format contains 2,657 epitopes predicted by NetCTL.

Format: TXT Size: 58KB Download file

Open Data

Additional file 2:

Epitopes predicted by NetMHC. This file in fasta format contains 1,249 epitopes predicted by NetCTL.

Format: TXT Size: 27KB Download file

Open Data

Additional file 3:

Epitopes predicted by BepiPred. This file in fasta format contains 5,450 epitopes predicted by BepiPred.

Format: TXT Size: 174KB Download file

Open Data

Additional file 4:

Epitopes predicted by AAP12. This file in fasta format contains 138,987 epitopes predicted by AAP12.

Format: TXT Size: 3.5MB Download file

Open Data

Additional file 5:

Epitopes predicted by BCPred12. This file in fasta format contains 42,750 epitopes predicted by BCPred12.

Format: TXT Size: 1.1MB Download file

Open Data

Additional file 6:

Predictions made by WoLF PSORT. This file contains predictions made by WoLF PSORT.

Format: TXT Size: 3KB Download file

Open Data

Additional file 7:

Predictions made by Predictions made by Sigcleave. This file contains predictions made by Sigcleave.

Format: TXT Size: 2KB Download file

Open Data

Additional file 8:

Predictions made by TargetP. This file contains predictions made by TargetP.

Format: TXT Size: 3KB Download file

Open Data

Additional file 9:

B-cell minimal epitopes experimentally validated extracted from IEDB. This file in fasta format contains 3,021 B-cell minimal epitopes from parasite proteins experimentally validated as immunogenic extracted from IEDB.

Format: TXT Size: 139KB Download file

Open Data

Additional file 10:

CD8+ T cell minimal epitopes experimentally validated extracted from IEDB. This file in fasta format contains 228 CD8+ T cell minimal epitopes from parasite proteins experimentally validated as immunogenic extracted from IEDB.

Format: TXT Size: 9KB Download file

Open Data

Additional file 11:

B-cell non-immunogenic regions experimentally validated extracted from IEDB. This file in fasta format contains 3,039 B-cell non-immunogenic regions from parasite proteins experimentally validated extracted from IEDB.

Format: TXT Size: 119KB Download file

Open Data

Additional file 12:

CD8+ T cell non-immunogenic regions experimentally validated extracted from IEDB. This file in fasta format contains 166 CD8+ T cell non-immunogenic regions from parasite proteins experimentally validated extracted from IEDB.

Format: TXT Size: 6KB Download file

Open Data

Additional file 13:

B-cell immunogenic consensus regions experimentally validated. This file in fasta format contains 607 B-cell immunogenic consensus regions from parasite proteins experimentally validated.

Format: TXT Size: 33KB Download file

Open Data

Additional file 14:

B-cell non-immunogenic consensus regions experimentally validated. This file in fasta format contains 243 B-cell non-immunogenic consensus regions from parasite proteins experimentally validated.

Format: TXT Size: 15KB Download file

Open Data

Additional file 15:

CD8+ T cell immunogenic consensus regions experimentally validated. This file in fasta format contains 140 CD8+ T cell immunogenic consensus regions from parasite proteins experimentally validated.

Format: TXT Size: 5KB Download file

Open Data

Additional file 16:

CD8+ T cell non-immunogenic consensus regions experimentally validated. This file in fasta format contains 84 CD8+ T cell cell non-immunogenic consensus regions from parasite proteins experimentally validated.

Format: TXT Size: 3KB Download file

Open Data

Additional file 17:

Trypanosomatid proteins with experimentally validated subcellular localization extracted from Unitprot. This file contains a list of 180 trypanosomatid proteins with its subcellular localization experimentally validated extracted from Uniprot.

Format: TXT Size: 2KB Download file

Open Data

Additional file 18:

Trypanosomatid proteins in fasta format with experimentally validated subcellular localization. This file in fasta format contains 180 trypanosomatid proteins with its subcellular localization experimentally validated.

Format: TXT Size: 118KB Download file

Open Data