Yazar "Süzek, Barış Ethem" için listeleme
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Comparison of protein expression profile of limb regeneration between neotenic and metamorphic axolotl
Sibai, Mustafa; Altuntas, Ebru; Süzek, Barış Ethem; Sahin, Betul; Parlayan, Cuneyd; Ozturk, Gurkan; Demircan, Turan (Academic Press Inc Elsevier Science, 2020)The axolotl (Ambystoma mexicanum) salamander, a urodele amphibian, has an exceptional regenerative capacity to fully restore an amputated limb throughout the life-long lasting neoteny. By contrast, when axolotls are ... -
A correlation coefficient-based feature selection approach for virus-host protein-protein interaction prediction
İbrahim, Ahmed Hassan; Karabulut, Onur Can; Karpuzcu, Betül Asiye; Türk, Erdem; Süzek, Barış Ethem (Plos, 2023)Prediction of virus-host protein-protein interactions (PPI) is a broad research area where various machine-learning-based classifiers are developed. Transforming biological data into machine-usable features is a preliminary ... -
Data mining and molecular dynamics analysis to detect HIV-1 reverse transcriptase RNase H activity inhibitor
Ghafoor, Naeem Abdul; Kırboğa, Kevser Kübra; Baysal, Ömür; Süzek, Barış Ethem; Silme, Ragıp Soner (nstitute for Ionics, 2023)HIV-1 is a deadly virus that affects millions of people worldwide. In this study, we aimed to inhibit viral replication by targeting one of the HIV-1 proteins and identifying a new drug candidate. We used data mining and ... -
DEVOUR: Deleterious Variants on Uncovered Regions in Whole-Exome Sequencing
Türk, Erdem; Ayaz, Akif; Yüksek, Ayhan; Süzek, Barış Ethem (PMC, 2023)The discovery of low-coverage (i.e. uncovered) regions containing clinically significant variants, especially when they are related to the patient's clinical phenotype, is critical for whole-exome sequencing (WES) based ... -
First case with RANBP2 biallelic mutation and severe acute necrotizing encephalopathy phenotype
Ayaz, Akif; Doğru, Zeynep; Kılıç, Betül; Süzek, Barış Ethem (Elsevier B.V., 2022)Familial acute necrotizing encephalopathy (ANE) is a rapidly progressive encephalopathy that can occur after common viral infections at different stages of life. The clinical findings of 2 siblings diagnosed with ANE were ... -
In Silico Analysis of a Highly Mutated Gene in Cancer Provides Insight into Abnormal mRNA Splicing: Splicing Factor 3B Subunit 1(K700E) Mutant
Samy, Asmaa; Süzek, Barış Ethem; Özdemir, Mehmet Kemal; Şensoy, Özge (Mdpi, 2020)Cancer is the second leading cause of death worldwide. The etiology of the disease has remained elusive, but mutations causing aberrant RNA splicing have been considered one of the significant factors in various cancer ... -
In silico analysis of autoimmune diseases and genetic relationships to vaccination against infectious diseases
McGarvey, Peter B.; Süzek, Barış Ethem; Baraniuk, James N.; Rao, Shruti; Conkright, Brian; Lababidi, Samir; Madhavan, Subha (Bmc, 2014)Background: Near universal administration of vaccines mandates intense pharmacovigilance for vaccine safety and a stringently low tolerance for adverse events. Reports of autoimmune diseases (AID) following vaccination ... -
Machine Learning Methods for Virus–Host Protein–Protein Interaction Prediction
Karpuzcu, Betül Asiye; Türk, Erdem; İbrahim, Ahmad Hassan; Karabulut, Onur Can; Süzek, Barış Ethem (Humana Press Inc., 2023)The attachment of a virion to a respective cellular receptor on the host organism occurring through the virus–host protein–protein interactions (PPIs) is a decisive step for viral pathogenicity and infectivity. Therefore, ... -
ML-AdVInfect: A Machine-Learning Based Adenoviral Infection Predictor
Karabulut, Onur Can; Karpuzcu, Betül Asiye; Türk, Erdem; Ibrahim, Ahmad Hassan; Süzek, Barış Ethem (Frontiers, 2021)Adenoviruses (AdVs) constitute a diverse family with many pathogenic types that infect a broad range of hosts. Understanding the pathogenesis of adenoviral infections is not only clinically relevant but also important to ... -
Preclinical Molecular Signatures of Spinal Cord Functional Restoration: Optimizing the Metamorphic Axolotl (Ambystoma mexicanum) Model in Regenerative Medicine
Demircan, Turan; Hacibektasogu, Harbiye; Sibai, Mustafa; Fescioglu, Ece Cana; Altuntaş, Ebru; Ozturk, Gurkan; Süzek, Barış Ethem (Mary Ann Liebert, Inc, 2020)Regenerative medicine offers hope for patients with diseases of the central and peripheral nervous system. Urodele amphibians such as axolotl display an exceptional regenerative capacity and are considered as essential ... -
A Qualıty Control System Prototype for Detectıng Knot Defects in the Wooden Panel Manufacturıng
Kılıç, Özgür; Susuz, Mertcan; Süzek, Barış Ethem (2019)Product quality has become a necessary goal for all manufacturers in today’s competitive market. Product defects, not detected, cause financial damages and reputation loss for the manufacturer. These defects can be due to ... -
UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches
Süzek, Barış Ethem; Wang, Yuqi; Huang, Hongzhan; McGarvey, Peter B.; Wu, Cathy H. (Oxford Univ Press, 2015)Motivation: UniRef databases provide full-scale clustering of UniProtKB sequences and are utilized for a broad range of applications, particularly similarity-based functional annotation. Non-redundancy and intra-cluster ...
