PeptiHub: a curated repository of precisely annotated cancer-related peptides with advanced utilities for peptide exploration and discovery.

Autor:	Zareei S; Department of Cell & Molecular Biology, Faculty of Biological Sciences, Kharazmi University, South Mofateh Ave. , Tehran 15719-14911, Iran., Khorsand B; Department of Neurology, University of California, 200 S. Manchester Ave., Suite 206 Orange, Irvine, CA 92868-4280, USA.; Department of Computer Engineering, Faculty of Engineering, Ferdowsi University of Mashhad, Azadi Square , Mashhad 9177948974, Iran., Dantism A; Department of Biophysics, Faculty of Biological Sciences, Tarbiat Modares University, Jalal AlAhmad HWY, Tehran 14115-111, Iran., Zareei N; Transplant Research Center, Shiraz University of Medical Sciences, Khalili Str, Shiraz 7193711351, Iran., Asgharzadeh F; Department of Medical Physiology, Faculty of Medicine, Mashhad University of Medical Sciences, Azadi Sq., Mashhad 9177948564, Iran., Zahraee SS; Faculty of Life Sciences and Biotechnology, Shahid Beheshti University, Dr. Shahriari Sq., Tehran 1983969411, Iran., Mashreghi Kashan S; Department of Medicinal Biotechnology, Faculty of Advanced Technology in Medicine, Golestan University of Medical Sciences, Shast Kola Road, Gorgan 4918936316, Iran., Hekmatirad S; Department of Toxicology and Pharmacology, Faculty of Pharmacy, Tehran University of Medical Sciences, 16 Azar Ave, Tehran 1416753955, Iran., Amini S; Department of Genetics, Faculty of Advanced Science and Technology, Medical Sciences Branch, Islamic Azad University, Shariati St., Tehran 19395/1495, Iran., Ghasemi F; Department of Computer Engineering, Faculty of Engineering, Ferdowsi University of Mashhad, Azadi Square , Mashhad 9177948974, Iran., Moradnia M; Division of Occupational and Environmental Medicine, Department of Laboratory Medicine, Faculty of Medicine, Lund University, Lund BOX 117,221 00, Sweden., Vaghf A; Department of Medical Biotechnology, Faculty of Advanced Technologies, Shahrekord University of Medical Science, Kashani BLVD., Shahrekord 8815713471, Iran., Hemmatpour A; Department of Clinical Biochemistry, Faculty of Medicine, Shahid Sadoughi University of Medical Sciences and Health Services, Aalam Sq., Yazd 8915173149, Iran., Hourfar H; Bioprocess Engineering Research Group, Department of Industrial and Environmental Biotechnology, National Institute for Genetic Engineering and Biotechnology, Tehran-Karaj HWY, Tehran 14965/161, Iran., Niknia S; Department of Biology, Kavian Institute of Higher Education, Elahiyeh Blv., Mashhad 91863-74915, Iran., Johari A; Department of Biology, Kavian Institute of Higher Education, Elahiyeh Blv., Mashhad 91863-74915, Iran., Salimi F; Department of Clinical Science, Faculty of Veterinary Medicine, Razi University, Taq-e Bostan, Kermanshah 6714414971, Iran., Fariborzi N; Department of Biology and Biotechnology, Faculty of Molecular Biology and Genetics, University of Pavia, S.da Nuova, Pavia 65, 27100, Italy., Shojaei Z; Department of Cell & Molecular Biology, Faculty of Biological Sciences, Kharazmi University, South Mofateh Ave. , Tehran 15719-14911, Iran., Asiaei E; Systems Biotechnology Research Group, Department of Industrial and Environmental Biotechnology, National Institute for Genetic Engineering and Biotechnology, Tehran-Karaj HWY., Tehran 14965/161, Iran., Shabani H; Department of Biology, Faculty of Biosciences, Tehran North Branch, Islamic Azad University, Vafadar Blv., Tehran 1651153311, Iran.
Jazyk:	angličtina
Zdroj:	Database : the journal of biological databases and curation [Database (Oxford)] 2024 Sep 20; Vol. 2024.
DOI:	10.1093/database/baae092
Abstrakt:	Peptihub (https://bioinformaticscollege.ir/peptihub/) is a meticulously curated repository of cancer-related peptides (CRPs) that have been documented in scientific literature. A diverse collection of CRPs is included in the PeptiHub, showcasing a spectrum of effects and activities. While some peptides demonstrated significant anticancer efficacy, others exhibited no discernible impact, and some even possessed alternative non-drug functionalities, including drug carrier or carcinogenic attributes. Presently, Peptihub houses 874 CRPs, subjected to evaluation across 10 distinct organism categories, 26 organs, and 438 cell lines. Each entry in the database is accompanied by easily accessible 3D conformations, obtained either experimentally or through predictive methodology. Users are provided with three search frameworks offering basic, advanced, and BLAST sequence search options. Furthermore, precise annotations of peptides enable users to explore CRPs based on their specific activities (anticancer, no effect, insignificant effect, carcinogen, and others) and their effectiveness (rate and IC50) under cancer conditions, specifically within individual organs. This unique property facilitates the construction of robust training and testing datasets. Additionally, PeptiHub offers 1141 features with the convenience of selecting the most pertinent features to address their specific research questions. Features include aaindex1 (in six main subcategories: alpha propensities, beta propensity, composition indices, hydrophobicity, physicochemical properties, and other properties), amino acid composition (Amino acid Composition and Dipeptide Composition), and Grouped Amino Acid Composition (Grouped amino acid composition, Grouped dipeptide composition, and Conjoint triad) categories. These utilities not only speed up machine learning-based peptide design but also facilitate peptide classification. Database URL: https://bioinformaticscollege.ir/peptihub/. (© The Author(s) 2024. Published by Oxford University Press.)
Databáze:	MEDLINE
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