Education
PhD. Student, Bioengineering
Marmara University, Istanbul 2019 - Present
MSc., Bioengineering
Marmara University, Istanbul 2014 - 2019
MSc., Biology
Namik Kemal University, Tekirdag 2013 - 2016
BSc., Biology
Izzet Baysal University, Bolu 2007 - 2011
Awards
UNESCO
Cultural Challenge, Best Promotion 2005
Career
Head of Biodiversity Informatics
ANG Foundation, Istanbul 05 2012 - 07 2023
Bioinformatician
Epista Bioinformatics, Istanbul 09 2013 - 06 2022
Board Member
Aydınkal Group, Samsun 06 2022 - Present
Skills
Bash Scripting
Python
php
SQL
Javascript & jQuery & Ajax
node.js
R
Perl
Engineering Tool
MATLAB
ProSNEx
Protein Structure Network Explorer
Web
Otobur™: Botanic Garden Data Management System
Turkish Patent and Trademark Office Grant No: 2017 17866
Web application system designed for collection management in botanical gardens, museums and historical societies.
Bağbahçe Science Journal
Supporting science journal in
- Database and Layout
- Server Management
Web
BizimBitkiler
Web check-list of Turkish Flora.
Web
Tehd!tAltinda
Web list of endangered species of Turkish plants.
Web
e-Flora of Turkey
The first Turkish language account of Turkey's vascular plants as e-flora. turkiyeflorasi.org.tr
Herbarium Digitization
- Imaging
- Databasing
- Georeferencing
QR Code
QR code multimedia labels for public interpretation.
Article
Aydinkal, R.M., Sercinoglu, O., Ozbek, P. (2019)
ProSNEx: a web-based application for exploration and analysis of protein structures using network formalism,
Nucleic Acids Research doi: 10.1093/nar/gkz390
Aydinkal, R.M. and Bagci, E.Z., (2018)Residue packing in globular and intrinsically disordered proteins. Proteins: Structure, Function, and Bioinformatics. doi: 10.1002/prot.25459
Thesis
Computational investigation of the extent of regularities in residue packing in a representative group of intrinsically disordered proteins
Namik Kemal University, Tekirdag 2016
Development of a web–based tool for network analysis of protein structures
Marmara University, Istanbul 2019
Chapter in Book
Türkiye Bitkileri Listesi (Damarlı Bitkiler)
Nezahat Gökyiğit Botanik Bahçesi ve Flora Araştırmaları Derneği Yayını2012
Integrated Land-use Management Modelling of Black Sea Estuaries (ILMM-BSE) Project: Ergene River Basin
Namik Kemal University Press2016
Oral Presentation
6th Global Botanic Gard. Cong., Geneva (Switzerland). doi: 10.5281/zenodo.11584312017
Otobur in Action
Biodiversity_next, Leiden (Netherlands).2019
Poster Presentation
Residue Packing at the Interfaces of Protein Complexes
5th Inter. BAU Drug Design Cong., Istanbul2017
Comparison of residue packing of housekeeping genes (GAPDH and UBQ- conjugat_E2) from human (Homo sapiens) and yeast (Saccharomyces cerevisiae) species with non-homologous globular proteins
1st Inter. Conf. of Genomics and Bioinformatics (ICGB), Aydın2018
Workshop Participant
Stereological Methods
Tur. Soc. for Stereology, Malatya (Turkey)2013
Turkish Linux Users Association (LKD), Bolu2014
Molecular Modeling and Drug Discovery Technology
Acıbadem University, Istanbul (Turkey)2017
Dialogues in the MIDST: Residue Networks
Sabanci University, Istanbul (Turkey)2018
Workshop Organization
Otobur™: Complete Solution to the Data Management Challenges for Botanic Gardens
EUROGARD VIII, Lisbon (Portugal)2018
Scientific Community
(2017-) Member
Congress Participant
22th National Biology Congress
Osmangazi University, Eskisehir (Turkey)2014
8th International Symposium on the Apiales
Istanbul University, Istanbul (Turkey)2015
National Plant Biology Congress
Izzet Baysal University, Bolu (Turkey)2015
Next Generation Pteridology
Smithsonian Inst., Washington DC. (U.S.A)2015
6th Global Botanic Gardens Congress
CJBG, Geneva (Switzerland)2017
5th International BAU Drug Design Congress
Istanbul (Turkey)2017
8th European Botanic Gardens Congress
Lisbon (Portugal)2018
Biodiversity_next Conference
Leiden (Netherlands)2019