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McBASC specifications


Unique identifier OMICS_29039
Alternative name McLachlan Based Substitution Correlation
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Version 1.1
Stability Stable
Maintained Yes




No version available


  • person_outline Richard Aldrich

Publications for McLachlan Based Substitution Correlation

McBASC citations


Protein sites with more coevolutionary connections tend to evolve slower, while more variable protein families acquire higher coevolutionary connections

PMCID: 5506539
PMID: 28751967
DOI: 10.5256/f1000research.12138.r21733
call_split See protocol

[…] ein families. Altogether we identified 19,736 (out of total 36,616) coevolved site pairs located within 10Å spatial distance from the 753 family alignments, with a MIp Z-score cutoff of 4.0 or higher.McBASC ( was used to calculate the simple inter-position coevolution for the 753 protein family alignments. McBASC provides high score for non-cons […]


Emerging Computational Methods for the Rational Discovery of Allosteric Drugs

PMCID: 4901368
PMID: 27074285
DOI: 10.1021/acs.chemrev.5b00631

[…] ity to predict contacting residue pairs. These comparisons found that the “new” methods (the ZPX2 family, DCA, and log(R) (not discussed here)) were significantly superior to the “old” methods (OMES, McBASC, ELSC, and SCA). […]


Progress and challenges in predicting protein interfaces

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

[…] ediction [], scoring of docking decoys [] as well as in protein–protein interface prediction [, ] (E).Early applications of co-evolution to protein interface prediction include OMES [], MI [] SCA [], McBASC [], ELSC [] and the more recent i-Patch [] and EVComplex []. The earlier methods generally suffer from low precision (20–25% precision at 20% recall) []. The more recent method, i-Patch, achiev […]


Multiple Co Evolutionary Networks Are Supported by the Common Tertiary Scaffold of the LacI/GalR Proteins

PLoS One
PMCID: 3877293
PMID: 24391951
DOI: 10.1371/journal.pone.0084398

[…] ifferent algorithms rank different pairs as the most strongly co-evolving , with no single algorithm clearly more “correct” than others. Thus, for this work, we used five common methods – ZNMI, OMES, McBASC, ELSC and SCA – that employ divergent strategies to detect evolutionary constraints. ZNMI uses information theory ; OMES calculates a goodness-of-fit-like statistical parameter , ; McBASC detec […]


Computational enzyme design approaches with significant biological outcomes: progress and challenges

Comput Struct Biotechnol J
PMCID: 3962085
PMID: 24688648
DOI: 10.5936/csbj.201209007

[…] ss this, Fodor et al. [] assessed the performance of four different methods in detecting coevolutionary site, namely Statistical Coupling Analysis (SCA) [], Observed Minus Expected Squared (OMES) [], McLachlan Based Substitution correlation (McBASC) [] and Mutual Information (MI) []. In their research, OMES and McBASC were found to outperform the other two algorithms in favoring poorly conserved r […]


Accurate Simulation and Detection of Coevolution Signals in Multiple Sequence Alignments

PLoS One
PMCID: 3473043
PMID: 23091608
DOI: 10.1371/journal.pone.0047108

[…] ing Analysis (DCA) , , and the three binary methods (db, dgb, and nbZPX2) described above.We have also tested several non-MI algorithms including Observed Minus Expected Squared Covariance (OMES) , , McLachlan Based Substitution Correlation (McBASC) , , Explicit Likelihood of Subset Co-variation (ELSC) , Statistical Coupling Analysis (SCA) , , . Sparse Inverse Covariance (PSICOV) could not be tes […]


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McBASC institution(s)
Department of Molecular and Cellular Physiology, and Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA, USA
McBASC funding source(s)
Supported by the Mathers Foundation.

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