Convolutional Neural Networks for Metagenomics Gene Prediction
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The bioinformatics laboratory of the African Genome Center at the University of Mohammed VI Polytechnic Benguerir Morocco is seeking applicants for a Postdoc Position in Bioinformatics/Computational Biology. The successful candidate will develop and maintain novel bioinformatics tools and algorithms. The candidate will work with an enthusiastic team of Ph.D. students and postdocs, with diverse backgrounds, including plant molecular biology, biomedical bioinformatics, machine learning, metagenomics as well as chemoinformatics.
The deadline: 2022-10-10
In this publication, we present CicerSpTEdb, a comprehensive TE database for Cicer species that aims to improve our understanding of the organization and structural variations of the chickpea genome
In this publication, we present a novel network-based method to detect subnetwork markers for patients with colorectal cancer (CRC).
This publication presents the PlantPathMarks database (PPMdb) as a comprehensive, web-based, user-friendly, and interactive hub for pathway-based markers in plant genomes
The goal of this research was to develop a new genetic database of simple sequence repetition (SSR) primers for faba and classify them according to their target genes and respective biological processes
In this publication, we comprehensively explore machine learning based approaches used for the prediction of 11 RNA modification types, namely, m1A, m6A, m5C, 5hmC, psi, 2OMe, ac4C, m7G, AtoI, m2G, and D
This study used a chickpea population collected from ICARDA genebank. The germplasm included 186 genotypes with broad Asian and African origins and genotyped with 1856 DArTseq markers. Phenotyping for salinity in the field (Arish, Sinai, Egypt) and greenhouse hydroponic experiments at 100 mM NaCl concentration were conducted. Seven genotypes from Azerbaijan and Pakistan (IGs: 70782, 70430, 70764, 117703, 6057, 8447, and 70249) were identified as potential sources for high salinity tolerance.
In this study, we combine molecular docking, molecular dynamics (MD) simulation, and Quantum Mechanics/Molecular Mechanics (QM/MM) to identify the impact of 30 mutations on the activity and stability of PTDH.
In this study we identified new potential compounds for possible medical use against HCV using the quantitative structure–activity relationship (QSAR). A set of 36 NS5A inhibitors was used to build QSAR models using genetic algorithm multiple linear regression (GA-MLR) and Monte Carlo optimization and were implemented in the software CORAL.The constructed GA-MLR model with satisfactory statistical parameters (R2 = 0.915 and Q2 = 0.941) confirmed the predicted inhibitory activity for the compounds.
In this paper, 8,768,261 scaffolds/chromosomes containing 229,093 giga-base pairs representing whole-genome sequences of 256 plant species were analyzed to identify tRNA genes. As a result, 331,242 nuclear, 3,216 chloroplast, and 1,467 mitochondrial tRNA genes were identified
In this review, we focus on the biochemical properties of host cell proteases that facilitate the entry of SARS-CoV-2, and we highlighted therapeutic small molecule candidates that have been proposed through in silico research.
This review focuses on the recent development of hybrid compounds targeting integrase (IN), reverse transcriptase (RT), and protease (PR) proteins and provides a brief description of their chemical structures, structure-activity relationship, and binding mode. View Full-Text
Sheep breeds from three locations in Egypt (Saidi, Wahati, and Barki) were studied with a total of 206 ewes. The heat tolerance index of the animals was calculated to identify animals with high and low heat tolerance based on their response to meteorological and physiological parameters. In this paper, we investigate the genomic structure that might control the adaptability of local sheep breeds to environmental stress under hot and dry conditions.
A CENTRAL LAB TURNING HUMAN RESOURCES INTO ASSETS
Mohammed VI Polytechnic University (UM6P) is an international higher education institution established to put research and innovation at the service of education and development for Morocco and the African continent. The African Genome Center (AGC) aims to promote research and education in genomics, proteomics and bioinformatics in agriculture, environment, human health and food. The Bioinformatics Laboratory conducts research in bioinformatics, computational biology, and computational chemistry. The lab also provides bioinformatics consulting and data management services to AGC, UM6P researchers and their collaborators. Our laboratory addresses bioinformatics needs at the national and African levels. The African Genome Center has state-of-the-art NGS sequencers and mass spectrometry. In addition, UM6P recently acquired the largest high-performance computing (HPC) cluster in Africa. We aim to leverage these resources to centralize the bioinformatics needs internally and at the African level, and to develop innovative research and training programs.