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Citations per year

Number of citations per year for the bioinformatics software tool proABC
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This map represents all the scientific publications referring to proABC per scientific context
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proABC specifications

Information


Unique identifier OMICS_06076
Name proABC
Alternative name prediction of Antibody Contacts
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for prediction of Antibody Contacts

proABC citations

 (12)
library_books

Ofatumumab Monoclonal Antibody Affinity Maturation Through in silico Modeling

2018
PMCID: 5889503
DOI: 10.22034/ibj.22.3.180

[…] lity. Y32L, R91L, S92L, N93L, D98H, I99H, Q100H, and G102H residues have PIER value above 30.Identification of functionally and structurally important residues in Ofatumumab antibody was predicted by proABC server. This server estimates the interaction probability of each residue with the cognate antigen. Also, ConSeq server predicted several residues, which were identified as functional residues […]

library_books

Metabolic and fitness determinants for in vitro growth and intestinal colonization of the bacterial pathogen Campylobacter jejuni

2017
PLoS Biol
PMCID: 5438104
PMID: 28542173
DOI: 10.1371/journal.pbio.2001390

[…] s are unknown. Insertions in 46 genes resulted in mutants with growth defects in defined liquid but not in solid rich media ( and ). Among those, we identified mutations in genes involved in proline (proABC), biotin (bioAFD), and purine and pyrimidine (carB, pyrBF, and purEFHLMNQS) biosynthesis. These observations validated our experimental approach since the defined medium used in the screen lack […]

library_books

Superposition free comparison and clustering of antibody binding sites: implications for the prediction of the nature of their antigen

2017
Sci Rep
PMCID: 5364466
PMID: 28338016
DOI: 10.1038/srep45053

[…] strategy that combines the Zernike clustering with a method that predicts with good accuracy the probability that a given antibody amino acid is in direct contact with the antigen. The method, named proABC (prediction of antibody contacts), is based on automatic learning, random forest in particular, and has been trained using all the antibodies of known structure in complex with an antigen. To e […]

library_books

Applicability of predictive toxicology methods for monoclonal antibody therapeutics: status Quo and scope

2016
PMCID: 5364268
PMID: 27766364
DOI: 10.1007/s00204-016-1876-7

[…] ratope interaction fingerprint (EPIF) which tries to address the higher time-complexity of MLPD, thus allowing for simplification the antigen–antibody interaction term (Qiu et al. , ). Platforms like proABC, ABangle and LYRA allow for modelling antigen–antibody interactions, orientation of variable chain and lymphocyte receptor, respectively (Klausen et al. ; Olimpieri et al. ; Dunbar et al. ). Ph […]

library_books

Transcriptome analysis of Enterococcus faecalis in response to alkaline stress

2015
Front Microbiol
PMCID: 4528170
PMID: 26300863
DOI: 10.3389/fmicb.2015.00795

[…] 0246, orf00247, orf00248, and orf00252) participated in pyrimidine metabolism, and all of these genes were significantly up-regulated in alkaline stress. The carAB (orf00250 and orf00251) operons and proABC (orf02358, orf023587, orf00819), which are involved in arginine and proline metabolism, also showed significant up-regulation under alkaline stress. Koo et al. () also reported that the increas […]

library_books

Progress and challenges in predicting protein interfaces

2015
Brief Bioinform
PMCID: 4719070
PMID: 25971595
DOI: 10.1093/bib/bbv027

[…] ARATOME, over the past 2 years there has been an increasing interest in developing methodologies that predict specific paratope residues. There are currently three methods which address this problem: proABC [], Antibody i-Patch [] and ISMBLab-PPI []. ProABC is a RF-based machine learning protocol, which requires only the sequence of the antibody on input. Antibody i-Patch is a statistical method, […]


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proABC institution(s)
Department of Physics, Sapienza University and Istituto Pasteur - Fondazione Cenci Bolognetti, Rome, Italy

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