Journal of Computational Biology and Bioinformatics Research

Development of information system for tracking breeding traits of improved crops

The importance of keeping track of research data is becoming vital in agricultural research institutions. A study was conceived in response to the need to improve the storage, tracking and dissemination of research data collected during the breeding of improved crops. It was conducted to develop a system for tracking breeding records, at the National Agricultural Research Laboratories (NARL) in Uganda.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/7CC9BAC67158

A bioinformatics analysis and homology modeling of polyadenylate binding protein of Plasmodium falciparum 3D7

Malaria is one of the major causes of morbidity and mortality in tropical and sub-tropical parts of the world. Plasmodium falciparum polyadenylate binding protein (PABP) plays a vital role in the stable RNA accumulation of host cells during P. falciparum malaria parasite infection.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/756493F66015

Multivariate analysis of groundnut (Arachis hypogaea L.) cultivars based on oil traits

This study was planned to investigate genetic variability based on cluster analysis of groundnut cultivars based on morpho-agronomic traits.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/E13343562972

Does a protein coevolve with its multiple interacting partners? A case study

Here, the coevolution of proliferating cell nuclear antigen (PCNA) with their multiple interacting protein partners was studied.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/FF035ED9875

Annotation of virulence factors in schistosomes for the development of a SchistoVir database

As a first step towards creating SchistoVir, a database of virulence protein factors in schistosomes, in this study, we curated, annotated and aligned sequences of twenty virulence factors identified from the literature, using several bioinformatics tools including UniProtKB, SchistoDB, VirulentPred, InterProScan, ProtScale, MotifScan, TDRtarget, SignalP, MODBASE, PDB and MUSCLE.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/19EC4499816

Development of genodynamic metrics for exploring the biophysics of DNA polymorphisms

Since living systems have not been found to develop in the absence of environmental influences, this paper describes the analogous genomic free energy metrics in a given environment.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/60FC53E48559

Does a protein coevolve with its multiple interacting partners? A case study

Here, the coevolution of proliferating cell nuclear antigen (PCNA) with their multiple interacting protein partners was studied. The ‘mirror tree’ method was used to predict the signature of coevolution of the interacting pairs.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/FF035ED9875

A bioinformatics analysis and homology modeling of polyadenylate binding protein of Plasmodium falciparum 3D7.

In this study, authors predicted the structure of P. falciparum PABP using homology modeling and also carried out active site prediction and docking simulation to provide insights on this protein as a potential antimalarial drug target.

See more: https://academicjournals.org/journal/JCBBR/article-full-text/756493F66015

Multivariate analysis of groundnut (Arachis hypogaea L.) cultivars based on oil traits.

This study was planned to investigate genetic variability based on cluster analysis of groundnut cultivars based on morpho-agronomic traits.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/E13343562972

The perils of artificial intelligence in healthcare: Disease diagnosis and treatment.

This review addresses the uncertainty of AI applications to disease diagnosis and treatment, not only pinpointing AI’s inherent algorithmic problems in dealing with non-patternable stochastic healthcare data, but also revealing the innate fallacy of identifying genetic mutations as a tool for genome-based personalized medicine.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/709CF4D60751

Theoretical and conceptual derivation of threshold phenomena and metabolic switching models in a chemostat system.

This study has been carried out in cultures at a level that is between the level of the reactor and that of intracellular reactions.

See article: https://academicjournals.org/journal/JCBBR/article-abstract/5EC422C58976

Selection of T cell epitopes from S. mansoni Sm23 protein as a vaccine construct, using Immunoinformatics approach.

This study uses an in silico approach to identify potential target vaccine candidate or T cell epitopes (T cell response activating epitope) for the treatment of schistosomiasis.

Full study: https://academicjournals.org/journal/JCBBR/article-abstract/C9C1DC757412

Computational sequence analysis and in silico modeling of a stripe rust resistance protein encoded by wheat TaHSC70 gene.

The present study was aimed at sequence and in silico structural analysis of Hsp70 protein coded by this gene, through comparative modeling approach.

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Development of genodynamic metrics for exploring the biophysics of DNA polymorphisms.

In this study, the authors developed information metrics for SNP microstates that can quantify viable sequence variation in the human the human genome.

Full study: https://academicjournals.org/journal/JCBBR/article-abstract/60FC53E48559

Does a protein co-evolve with its multiple interacting partners? A case study.

Here, the coevolution of proliferating cell nuclear antigen (PCNA) with their multiple interacting protein partners was studied.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/FF035ED9875

MLH1 gene: An in silico analysis.

The present study analysed the MLH1 gene mutations using the tools Sorting intolerant from tolerant (SIFT), PolyPhen-2, functional analysis and selection tool for single nucleotide polymorphisms (FASTSNP) and UTRscan.

See article: https://academicjournals.org/journal/JCBBR/article-abstract/381F7A49804

Annotation of virulence factors in schistosomes for the development of a SchistoVir database.

In this study, author’s curated, annotated and aligned sequences of twenty virulence factors identified from the literature, using several bioinformatics tools including UniProtKB, SchistoDB, VirulentPred, InterProScan, ProtScale, MotifScan, TDRtarget, SignalP, MODBASE, PDB and MUSCLE.

Full study: https://academicjournals.org/journal/JCBBR/article-abstract/19EC4499816

Establishment of rice yield prediction model using canopy reflectance.

The major objective of this study were to identify spectral characteristics associated with rice yield and to establish their quantitative relationships.

See article: https://academicjournals.org/journal/JCBBR/article-abstract/79C67CA9725

Three dimensional modelling of beta endorphin and its interaction with three opioid receptors.

The present study work was aimed at predicting the three dimensional structures of beta endorphin and mu opioid receptor.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/DCF2A719741

Analysis of structurally conserved atomic interactions in structural homologs of nicotinamide adenine dinucleotide binding dehydrogenases.

In the present study, a dataset of nicotinamide adenine dinucleotide (NAD) binding dehydrogenase was prepared by screening 19 structural homologues using the SCOP database to study the structurally conserved atomic interactions.

Full study: https://academicjournals.org/journal/JCBBR/article-abstract/482A12E9687

A computational analysis to understand the role of DmsD in the biosynthesis of dimethyl sulfoxide (DMSO) reductase.

In this study, a computational analysis was carried out with a view to predict possible interaction between DmsD and mature DmsA and also to find the involvement of other proteins in DMSO reductase biosynthesis.

More at: https://academicjournals.org/journal/JCBBR/article-abstract/9270C189703

A new biophysical metric for interrogating the information content in human genome sequence variation: Proof of concept.

In this paper, the authors seek to explore the biophysical underpinnings of common variation in the genome. This perspective makes the physics of DNA sequence variation in the human genome relevant in new ways to concepts in biology and biomedical science.

See more: https://academicjournals.org/journal/JCBBR/article-abstract/193028A9645