DcaP porin and its epitope-based subunit promise effective vaccines against Acinetobacter baumannii; in-silico and in-vivo approaches

AlgPred 2.0: an improved method for predicting allergenic proteins and mapping of IgE epitopes

(2020) Neelam Sharma et al.   BRIEFINGS IN BIOINFORMATICS

SignalP 5.0 improves signal peptide predictions using deep neural networks

(2019) José Juan Almagro Armenteros et al.   NATURE BIOTECHNOLOGY

Breaching the Barrier: Quantifying Antibiotic Permeability across Gram-negative Bacterial Membranes

(2019) Jehangir Cama et al.   JOURNAL OF MOLECULAR BIOLOGY

CDD/SPARCLE: the conserved domain database in 2020

(2019) Shennan Lu et al.   NUCLEIC ACIDS RESEARCH

The role of TonB-dependent copper receptor in virulence of Acinetobacter baumannii

(2018) Sajad Abdollahi et al.   INFECTION GENETICS AND EVOLUTION

An in silico structural and physicochemical characterization of TonB-dependent copper receptor in A. baumannii

(2018) Sajad Abdollahi et al.   MICROBIAL PATHOGENESIS

Subtractive proteomics to identify novel drug targets and reverse vaccinology for the development of chimeric vaccine against Acinetobacter baumannii

(2018) Vandana Solanki et al.   Scientific Reports

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

InterPro in 2019: improving coverage, classification and access to protein sequence annotations

(2018) Alex L Mitchell et al.   NUCLEIC ACIDS RESEARCH

A Multidisciplinary Approach toward Identification of Antibiotic Scaffolds for Acinetobacter baumannii

(2018) Satya Prathyusha Bhamidimarri et al.   STRUCTURE

Proteochemometrics-Based Prediction of Peptide Binding to HLA-DP Proteins

(2017) Ventsislav Yordanov et al.   Journal of Chemical Information and Modeling

BepiPred-2.0: improving sequence-based B-cell epitope prediction using conformational epitopes

(2017) Martin Closter Jespersen et al.   NUCLEIC ACIDS RESEARCH

CDD/SPARCLE: functional classification of proteins via subfamily domain architectures

(2016) Aron Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Gapped sequence alignment using artificial neural networks: application to the MHC class I system

(2015) Massimo Andreatta et al.   BIOINFORMATICS

Identification of putative vaccine candidates against Helicobacter pylori exploiting exoproteome and secretome: A reverse vaccinology based approach

(2015) Anam Naz et al.   INFECTION GENETICS AND EVOLUTION

The Pfam protein families database: towards a more sustainable future

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Identification of novel vaccine candidates againstAcinetobacter baumanniiusing reverse vaccinology

(2015) Ming-Hsien Chiang et al.   Human Vaccines & Immunotherapeutics

Genome- and proteome-wide screening strategies for antigen discovery and immunogen design

(2014) Sophie Schussek et al.   BIOTECHNOLOGY ADVANCES

SMART: recent updates, new developments and status in 2015

(2014) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Exploiting the Burkholderia pseudomallei Acute Phase Antigen BPSL2765 for Structure-Based Epitope Discovery/Design in Structural Vaccinology

(2013) Louise J. Gourlay et al.   CHEMISTRY & BIOLOGY

Microbe-Host Interactions: Structure and Role of Gram-Negative Bacterial Porins

(2013) Stefania Galdiero et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

The K1 Capsular Polysaccharide from Acinetobacter baumannii Is a Potential Therapeutic Target via Passive Immunization

(2013) Thomas A. Russo et al.   INFECTION AND IMMUNITY

MMDB and VAST+: tracking structural similarities between macromolecular complexes

(2013) Thomas Madej et al.   NUCLEIC ACIDS RESEARCH

In Silico Approach for Predicting Toxicity of Peptides and Proteins

(2013) Sudheer Gupta et al.   PLoS One

Outer membrane protein A (OmpA) from Shigella flexneri 2a: A promising subunit vaccine candidate

(2013) Debasis Pore et al.   VACCINE

Advances in structure-based vaccine design

(2013) Daniel W Kulp et al.   Current Opinion in Virology

Properties of MHC Class I Presented Peptides That Enhance Immunogenicity

(2013) Jorg J. A. Calis et al.   PLoS Computational Biology

SVMTriP: A Method to Predict Antigenic Epitopes Using Support Vector Machine to Integrate Tri-Peptide Similarity and Propensity

(2012) Bo Yao et al.   PLoS One

Reliable B Cell Epitope Predictions: Impacts of Method Development and Improved Benchmarking

(2012) Jens Vindahl Kringelum et al.   PLoS Computational Biology

Proteomic and Functional Analyses Reveal a Unique Lifestyle forAcinetobacter baumanniiBiofilms and a Key Role for Histidine Metabolism

(2011) Maria P. Cabral et al.   JOURNAL OF PROTEOME RESEARCH

High-throughput prediction of protein antigenicity using protein microarray data

(2010) Christophe N. Magnan et al.   BIOINFORMATICS

EpiTOP—a proteochemometric tool for MHC class II binding prediction

(2010) Ivan Dimitrov et al.   BIOINFORMATICS

Proteomic analysis of Acinetobacter baumannii in biofilm and planktonic growth mode

(2010) Ji-Hyun Shin et al.   JOURNAL OF MICROBIOLOGY

Transmembrane passage of hydrophobic compounds through a protein channel wall

(2009) Elizabeth M. Hearn et al.   NATURE

VirulentPred: a SVM based prediction method for virulent proteins in bacterial pathogens

(2008) Aarti Garg et al.   BMC BIOINFORMATICS

ElliPro: a new structure-based tool for the prediction of antibody epitopes

(2008) Julia Ponomarenko et al.   BMC BIOINFORMATICS

Therapeutic options forAcinetobacter baumanniiinfections

(2008) Jordi Vila et al.   EXPERT OPINION ON PHARMACOTHERAPY

Predicting linear B‐cell epitopes using string kernels

(2008) Yasser EL‐Manzalawy et al.   JOURNAL OF MOLECULAR RECOGNITION

In silicolocal structure approach: A case study on Outer Membrane Proteins

(2007) Juliette Martin et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS