Bioinformatics

Bioinformatics

Structural Bioinformatics

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1-13 of 13 ARTICLES
 in 
https://doi.org/10.12688/f1000research.155657.2
Research Article metrics
Revised
Molecular docking and MD simulation approach to identify potential phytochemical lead molecule against triple negative breast cancer
[version 2; peer review: 1 approved, 2 approved with reservations]
Pranaya Sankaranarayanan, Dicky John Davis G, Abhinand PA, M Manikandan, Arabinda Ghosh
Peer Reviewers Shiek S S J Ahmed; Yutian Zou; Indiraleka Muthiah
  • Funder
  • Sri Ramachandra Institute of Higher Education and Research (Deemed to be University)
LATEST VERSION PUBLISHED 18 Mar 2025
https://doi.org/10.12688/f1000research.142843.2
Research Article metrics
Revised
In silico analysis of molecular mimicry between human aquaporin 3, Aspergillus fumigatus aquaporin and aquaporins from allergic sources
[version 2; peer review: 2 approved]
Andrés Sánchez, Yaquelin Padilla, Adriana Lorduy, Jorge Sanchez, Marlon Munera, Claudia Baena, Carlos Bernal, Juan Urrego
Peer Reviewers Celso Eduardo Olivier; Elizabeth Garcia
LATEST VERSION PUBLISHED 12 Sep 2024
https://doi.org/10.12688/f1000research.134956.2
Research Article metrics
Revised
In silico screening for potential inhibitors from the phytocompounds of Carica papaya against Zika virus NS5 protein
[version 2; peer review: 3 approved]
Kishore Krishna Kumaree, Naga Venkata Anusha Anthikapalli, Anchalee Prasansuklab
Peer Reviewers Arumugam Vijaya Anand; Luis Marquez-Dominguez; Tiratha Raj Singh
  • Funder
  • Second Century Fund (C2F) Postdoctoral Fellowship, Chulalongkorn University
LATEST VERSION PUBLISHED 25 Jun 2024
https://doi.org/10.12688/f1000research.134465.2
Research Article metrics
Revised
Spatiotemporal structure and composition of the microbial communities in hypersaline Lake Magadi, Kenya
[version 2; peer review: 1 approved, 2 approved with reservations, 1 not approved]
Alex Kipnyargis, Eucharia Kenya, Fathiya Khamis, Romano Mwirichia
Peer Reviewers Marianne Haines; Srijak Bhatnagar; Cristiano Pedroso-Roussado; Addis Simachew
  • Funder
  • National Research Fund, Kenya
LATEST VERSION PUBLISHED 17 May 2024
https://doi.org/10.12688/f1000research.135151.1
Research Article metrics
Developing potential drugs for insomnia through computational analysis
[version 1; peer review: 1 approved, 1 approved with reservations]
Isaac Oronyi, Richard Kagia
Peer Reviewers Khaled M. Darwish; Yousaf Khan
PUBLISHED 16 Oct 2023
https://doi.org/10.12688/f1000research.132106.2
Research Article metrics
Revised
Nigella sativa L. seed extracts promote wound healing progress by activating VEGF and PDGF signaling pathways: An in vitro and in silico study
[version 2; peer review: 3 approved, 1 approved with reservations]
Chella Perumal Palanisamy, Phaniendra Alugoju, Selvaraj Jayaraman, Sirilux Poompradub
Peer Reviewers Balasubramani Ravindran; Monica Mironescu; Viji Rajendran; Vinothkannan Ravichandran
  • Funders
  • Center of Excellence in Green Materials for Industrial Application
  • Chulalongkorn University
LATEST VERSION PUBLISHED 21 Jun 2023
https://doi.org/10.12688/f1000research.130024.1
Research Article metrics
Identification of potential compounds for the management of multidrug-resistant tuberculosis using computational methods
[version 1; peer review: 2 not approved]
Winnie Gatwiri, Richard Kagia
Peer Reviewers Manish Dwivedi; Grace Mugumbate
PUBLISHED 17 Mar 2023
https://doi.org/10.12688/f1000research.74846.2
Method Article metrics
Revised
Hobotnica: exploring molecular signature quality
[version 2; peer review: 2 approved]
Alexey Stupnikov, Alexey Sizykh, Anna Budkina, Alexander Favorov, Bahman Afsari, Sarah Wheelan, Luigi Marchionni, Yulia Medvedeva
Peer Reviewers Roberto Malinverni; Shailesh Tripathi
  • Funders
  • Ministry of Science and Higher Education of the Russian Federation
  • National Institutes of Health
LATEST VERSION PUBLISHED 16 Aug 2022
https://doi.org/10.12688/f1000research.51868.3
Method Article metrics
Revised
Antibiotic Drug screening and Image Characterization Toolbox (A.D.I.C.T.): a robust imaging workflow to monitor antibiotic stress response in bacterial cells in vivo
[version 3; peer review: 2 approved]
Benjamin Mayer, Meike Schwan, Kai M. Thormann, Peter L. Graumann
Peer Reviewers Massimiliano Lucidi; Janos Kriston-Vizi and Qing Hsuan Ong
  • Funder
  • Deutsche Forschungsgemeinschaft
LATEST VERSION PUBLISHED 17 May 2022
https://doi.org/10.12688/f1000research.50850.3
Research Article metrics
Revised
Identifying potential drug targets and candidate drugs for COVID-19: biological networks and structural modeling approaches
[version 3; peer review: 3 approved]
Gurudeeban Selvaraj, Satyavani Kaliamurthi, Gilles H. Peslherbe, Dong-Qing Wei
Peer Reviewers Sugunadevi Sakkiah; Dhurvas C. Dinesh; Turanli Beste
  • Funders
  • Natural Sciences and Engineering Research Council of Canada
  • Ministry of Science and Technology of the People's Republic of China
  • Concordia University
  • National Natural Science Foundation of China
  • MITACS Global Research
LATEST VERSION PUBLISHED 17 May 2021
https://doi.org/10.12688/f1000research.28439.1
Data Note metrics
CFM: a database of experimentally validated protocols for chemical compound-based direct reprogramming and transdifferentiation
[version 1; peer review: 2 approved with reservations]
Alexey Sizykh, Khalimat Murtazalieva, Yulia Vyshkvorkina, Alexey Stupnikov, Yulia A. Medvedeva
Peer Reviewers Erdem B. Dashinimaev; Stephanie M. Willerth
  • Funder
  • Ministry of Science and Higher Education of the Russian Federation
PUBLISHED 16 Apr 2021
https://doi.org/10.12688/f1000research.28175.1
Research Article metrics
Energy-dependent protein folding: modeling how a protein folding machine may work
[version 1; peer review: 1 approved, 3 approved with reservations]
Harutyun Sahakyan, Karen Nazaryan, Arcady Mushegian, Irina Sorokina
Peer Reviewers Lisa J. Lapidus; Stephen D. Fried; Antonio Trovato; José Arcadio Farías Rico
  • Funders
  • Foundation Armenia (Switzerland)
  • National Academy of Sciences of Armenia
  • Strenic LLC
  • National Science Foundation
PUBLISHED 05 Jan 2021
https://doi.org/10.12688/f1000research.16454.2
Research Article metrics
Revised
Large-scale analysis of B-cell epitopes of envelope: Implications for Zika vaccine and immunotherapeutic development
[version 2; peer review: 2 approved]
Iman Almansour, Rahaf Alfares, Halah Aljofi
Peer Reviewers Meirong Jia; Sunil K Joshi
  • Funder
  • Imam Abdulrahman Bin Faisal University
LATEST VERSION PUBLISHED 27 Jun 2019
1-13 of 13 ARTICLES
Gateway Areas
  • Methods and Tools
    The Methods and Tools Gateway Area will allow researchers to publish outputs concerning both the application and research into the use of various computational methods to analyse quantities of biological data for a range of different results, including predictions and discoveries. Read more keyboard_arrow_right
  • Genetics and Genomics
    The Genetics & Genomics Gateway Area will enable researchers to publish content related to the analysis, storage and accessibility of DNA, RNA and protein sequences. This analysis can be conducted in a variety of ways, including comparison of sequences and relationships, identification of functions, and recognition of patterns across the samples. Read more keyboard_arrow_right
  • Transcriptomics
    By curating all outputs related to the analysis of the RNA transcripts produced by a genotype, the Transcriptomics Gateway Area will allow readers to easily access content pertinent to this research. Read more keyboard_arrow_right
  • Proteomics
    The Proteomics Gateway Area has been established to allow authors to access and publish research content related to the large-scale study of entire sets of proteins as proteomes. Read more keyboard_arrow_right
  • Metagenomics
    This Gateway Area will allow members of the bioinformatics community to collate all research related to the collection of genomes from an environmental sample. Read more keyboard_arrow_right
  • Metabolomics
    The Metabolomics Gateway Area provides a location for all research related to the large-scale study of metabolites within cells and organisms, particularly with an emphasis on the chemical processes involving these molecules. Read more keyboard_arrow_right
  • Phylogenetics
    The Phylogenetics Gateway Area will present researchers with the opportunity to locate outputs related to the evolutionary relationship between species, genes or organisms, among other entities. Read more keyboard_arrow_right
  • Systems Biology
    The Systems Biology Gateway Area acts as a hub for the bioinformatics community to publish their outputs which has been produced using expansive data and computational and mathematical methodology and analysis to develop a holistic approach towards biological mechanisms. We encourage submitters to publish a plethora of content related to both technological advances in the field, and how these developments impact the wider bioinformatics community. Read more keyboard_arrow_right
  • Structural Bioinformatics
    This Gateway Area provides researchers with the opportunity to collate all relevant content related to the analysis and modelling of molecules to determine their role and function within a cell. Read more keyboard_arrow_right
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