Welcome!
RSG-Turkey aims to establish a framework for the communication and interaction of the students and post-docs working in computational biology and bioinformatics in Turkey, as well as connecting the young Turkish community to its international counterparts. Our main objective is to provide an environment to share the knowledge and experience within the young scientists from various institutions and promote collaboration among them. Moreover, RSG-Turkey plans to expand training and work opportunities of students and researchers in the earlier years of their career.
Although computational biology and bioinformatics is a relatively new research area, several groups are performing high quality research in Turkey and the number of students (undergraduates and graduates) and young investigators is substantially high. However, there is an organizational gap for students to convert this high potential into fruitful discussions, information sharing and being aware of each other’s research. There are several nation-wide conferences and workshops regularly taking place in different cities. One of our mission will be bridging the organizational gap e.g. through getting involved in these activities and announcing them. This regional student council will serve to several universities and closely collaborate with the Bioinformatics Council, a recently established national organization which we percieve as the Turkish counterpart of the ISCB. In this way, this student organization will help introducing the industrial and academic research in computational biology and bioinformatics area.
Due to the limited range of applications in industry, computational biology and bioinformatics is not a very well-known area among students in Turkey. Encouraging the undergraduates to become more familiar with this field will be another goal for our community. In this means, we are going to arrange short talk series given by local and foreign researchers working in this area, in order to popularize the topic. Additionally, we are going to set up information desks in student centers of the universities to advertise computational biology and bioinformatics.
about us
Who we are?
RSG-Turkey is a member of The International Society for Computational Biology (ISCB) Student Council (SC) Regional Student Groups (RSG). We are a non-profit community composed of early career researchers interested in computational biology!
What we do?
So far we have organized annual symposiums across Turkey. We have ongoing webinar project on Bioinfonet to expand our knowledge with others. We also have student presentation series with a goal to promote our research area. Workshops are coming soon!
Anyone interested in computational biology & bioinformatics is welcome to join our community. We love meeting new people, join our growing network now!
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Years of Foundation
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Team Members
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Webinars
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Symposiums
- Recent Posts
- Popular Posts
Mapping Human Tissue Architecture and Pathology Using Spatial Transcriptomics
Presenter Dr. Ömer Ali Bayraktar Dr. Bayraktar did his postdoc with David Rowitch at the University of California, San Francisco and the University of Cambridge as a Life Sciences Research Foundation Fellow. During his postdoc, Dr. Bayraktar developed a large-scale spatial transcriptomic pipeline to map single cell gene expression and neural subtypes in situ. Using this approach, he discovered the heterogeneity of astroglial cells across the layers and areas of the mammalian cerebral cortex. He identified that astrocyte layer patterns diverge from classical neuronal laminae, revealing the complex neuroglial architecture of the cerebral cortex. Dr. Bayraktar did his PhD with..
Engin TatlıdilUnderstanding Disease Mechanistic for Better Drug Design
Presenter Dr. Ayesha Fatima Dr. Fatima is a pharmacist by profession. She graduated from University of the Punjab, Lahore, Pakistan, went to Malaysia for M.Sc and PhD. She worked in the pharmaceutical industry for a short period and took up academia because she wanted to pursue research in drug and formulation development. She has a keen interest in disease mechanistics and designing rational drugs that affect a whole signalling pathway. Presently, Dr. Fatima pursuing her research in Khan’s Big Data and Bioinformatics Lab at BILSAB as a post-doctoral fellow. Abstract Bioinformatics tools have become an essential part of modern medical..
Med&Omics: Hekimler için Biyoinformatik
Yazarlar: Ali Osman Çetin, Mustafa Güven, Fatma Betül Dinçaslan Hepimizin bildiği üzere yaşam bilimleri, çok disiplinli bir yapıda. Bu büyük bilgi birikimi içerisinde yaşam bilimlerini bütüncül bir bakış açısıyla anlayabilmek önem arz ediyor. Diğer disiplinler hakkında bilgi sahibi olmak, bu bütüncül bakış açısına katkıda bulunacaktır. Bizim çalışma grubumuz, özellikle klinik alanda deneyim kazanmış tıp doktoru olan ya da biyoenformatik çalışmaların medikal alanda uygulamalarını merak eden, diğer disiplinler hakkında da idaha geniş bakış açısı kazandıracak kaynakları öğrenmenin sancısını çeken arkadaşlarımızın ISCB RSG Türkiye’nin bir makale toplantısında birbirlerinden habersizce buluşmaları sonrasında ortaya çıktı. Birkaç tıp doktoru ile birkaç biyoinformatikçinin, başkaları için de..
Fatma Betul DincaslanLanguage Models Can Learn Complex Functional Properties of Proteins
Presenter Serbülent Ünsal Serbulent Unsal received her B.Sc. degree in Statistics and Computer Sciences from Karadeniz Technical University in Turkey. Following his graduation he continued his M.Sc. degree in Medical Informatics from Middle East Technical University in Turkey. During the Master’s program he studied multiscale computational tumor modeling in which he developed a tumor progression model using cellular automata and partial differential equations with Dr.Aybar Can Acar. In 2014 he started his PhD at the same department on developing deep learning models for low-data protein function prediction. His thesis is also part of a large-scale research project on discovery of..
Computational Challenges in Protein-RNA Interactions
Presenter Asst. Prof. Yaron Orenstein Yaron Orenstein is a Senior Lecturer and the head of the Computational Biology lab at the School of Electrical and Computer Engineering at Ben-Gurion University of the Negev. Yaron completed his BSc summa cum laude in Electrical Engineering and Computer Science at Tel-Aviv University, where he continued on a direct MSc track under the supervision of Prof. Dana Ron. He then completed his PhD in Computer Science at Tel-Aviv University supervised by Prof. Ron Shamir, where he received numerous awards and fellowships, such as the Deutch prize and the Dan David fellowship. He completed his..
Open Student Webinars Acıbadem University
Presenters Alara Erenel The Co-Occurrence of X, Y, and Z SNPs in BRCA1 Gene: an in silico Investigation Abstract Breast Cancer (BC) is the most common cancer type seen in women and the third most common one worldwide with an increasing rate of cases. Genomic studies revealed X, Y, and Z SNPs on Breast Cancer Gene 1 (BRCA1) may be co-occurring and affecting the BC formation. If they co-occur, investigating them individually would be misdirecting. In this research, the aim was to investigate whether 1) X, Y, and Z are on the same haplotype and co-occur and 2) co-occurrence of..
Novel full-length transcriptome analysis workflow ‘Nexons’ to uncover the regulation of poison exons in splicing factors in human germinal centre B cells
Presenter Özge Gizlenci Ozge Gizlenci received her B.Sc. degree in Molecular Biology and Genetics from Middle East Technical University in Turkey. Following her graduation in 2015, she continued her M.Sc. degree in Molecular Biosciences with a major in Cancer Biology from the University of Heidelberg. During the Master’s program, she took a semester abroad to start a joint project in her specialized interests, gene editing and stem cells, in the laboratory of Dr. Christian Brendel and Dr. David A. Williams at Dana-Farber/Boston Children’s Cancer and Blood Disorders Center where she returned to her work with Dr. Christian Brendel as a..
Deep Learning for Medical Image Analysis
Presenter Prof. Çiğdem Gündüz Demir Çiğdem Gündüz Demir received her B.S. and M.S. degrees in computer engineering from Boğaziçi University in 1999 and 2001, respectively, and her Ph.D. degree in computer science from Rensselaer Polytechnic Institute in 2005. She is currently a Professor of Computer Engineering and the Deputy Director of the KUIS AI Center at Koç University. Before joining Koç University, she was working as a faculty member at the Computer Engineering Department at Bilkent University. She was a visiting professor at Nanyang Technological University NTU, Singapore, in Fall 2009, and Stanford University in Spring 2013. Her main research..
Modelling Complex Microbial Communities Using Metagenomic Data
Presenter Assoc. Prof. Niranjan Nagarajan Dr. Nagarajan is Associate Director and Senior Group Leader in the Genome Institute of Singapore, and Associate Professor in the Department of Medicine and Department of Computer Science at the National University of Singapore. His research focuses on developing cutting edge genome analytic tools and using them to study the role of microbial communities in human health. His team conducts research at the interface of genetics, computer science and microbiology, in particular using a systems biology approach to understand host-microbiome- pathogen interactions in various disease conditions. Dr. Nagarajan received a B.A. in Computer Science and..
Plot plot veri görselleştirme: Zamanda Yolculuk
Geçtiğimiz yazıda (bkz: Plot plot veri görselleştirme: Volkan Plot), verimiz kadar onun nasıl sunulduğunun veriyi ve hikayeyi doğru anlamak açısından ne kadar önemli olduğundan bahsetmiştim. Bunun yanı sıra, aynı yazının devamında bir arkadaşımın sorusu üzerine, Volkan Plot nasıl çizilir ve nasıl yorumlanır ile (kendi yüksek lisans tezimden figürle) bir örnek plot çizimi eklemiş ve ne kadar veriyi, nasıl bir plota sığdırdığımızı açıklamıştım. Şimdi ise, yakın zamanda sevgili RSG takım arkadaşlarımızla grubumuzun 10 yıllık serüvenini ve bazı çıkarımlarımızı anlatan derleme yazısı için figür arayışında iken karşılaştığım ve ufak modifikasyonlarla “RSG’nin etkinlikleri ile zamanda yolculuk” edeceğimiz görseli çizdiğim kodları* ve detaylarını (asıl..
Mapping Human Tissue Architecture and Pathology Using Spatial Transcriptomics
Presenter Dr. Ömer Ali Bayraktar Dr. Bayraktar did his postdoc with David Rowitch at the University of California, San Francisco and the University of Cambridge as a Life Sciences Research Foundation Fellow. During his postdoc, Dr. Bayraktar developed a large-scale spatial transcriptomic pipeline to map single cell gene expression and neural subtypes in situ. Using this approach, he discovered the heterogeneity of astroglial cells across the layers and areas of the mammalian cerebral cortex. He identified that astrocyte layer patterns diverge from classical neuronal laminae, revealing the complex neuroglial architecture of the cerebral cortex. Dr. Bayraktar did his PhD with..
Call for Contributions
Thanks to our community members and colleagues from ISCB RSG Turkey, BioInfoNet Project is growing day by day. We now have 172 members signed up to our Biomarker community and we have proudly organised 3 important webinars! It is good to know that there will be more ahead! At this stage, we felt that we are ready to make calls for presentations for both professionals and students. We are proud to have the set up to invite you to organise your dream webinar with us. If you like the idea, please fill the appropriate form at presentation calls page. We are looking..
Zeynep OzkeserliCall for Abstracts – Student Webinars
Please fill this form if you are a student in a related field and would like to make a presentation. All contributions are much appreciated! Yükleniyor…
RSG TurkeyComputational Metagenomics on the Species Level
After Dr. Can’s (METU, Ankara – Turkey) talk, our next guest was from Robert Koch Institute, Berlin, Germany. Dr. Bernhard Y Renard heads the bioinformatics research group at Robert Koch Institute, the German national institute for infectious disease in Berlin, Germany and is an adjunct senior lecturer (Privatdozent) at the department of mathematics and computer science at Freie Universität Berlin. Dr. Renard’s talk was on computational metagenomics on the species level. You can find the recording of the webinar here on our community page and here on youtube. My highlight from this presentation is that metagenomics has a whole new set..
Reconstruction of Signaling Network Topology from Steady State and Dynamic Perturbation Data
The first webinar of BioInfoNet series was given by Dr. Tolga Can from METU (Middle East Technical University), Ankara, Turkey. METU is one of the oldest, biggest and best universities in Turkey. Dr. Can has a bioinformatics lab. in the Computer Science Department. His talk was on reconstruction of signaling networks from steady state perturbation data. You can find the recording of the webinar here on our community page and here on youtube. My take-home message from this webinar (apart from the scientific part) is Dr. Can’s these words: “As computer scientists we do not say “OK this is a..
Celebrating the BioInfoNet Project!
I met ISCB RSG Turkey guys in 2011 in the first student symposium which was held as a satellite meeting with HiBiT. I was working in a de novo genome project and it was my first time talking about a serious project as a graduate student at a symposium. Many of you can picture my anxiety. But things got better immediately: I met colleagues from Turkey! Some of you may have difficulty understanding why it would be “that” important and pleasing to meet colleagues. Well… If you live and study in a developing country and you are, almost, trying to study in a..
Tek Hücre Dizileme: Az Bilinen Önemli Detaylar
Daha önce dizileme (sekanslama/sequencing) üzerine çeşitli yazılarımız oldu blogda. Tek hücre sekanslama, büyük miktarda veri girişi sağlıyor. Yöntemin hedefine göre transkriptomik, genomik, proteomik, epigenomik profili ortaya çıkarıyor. Öte yandan, şu ana kadar geliştirilen yöntemlerin perde arkasındaki tekniklerin ufak gibi gözüken ancak önemli alt teknikler üzerine bir yazı yayınlamamıştık. Bir teknik geliştirici olarak bu tür detayların hem yöntemleri hem de analizi yorumlarken bütüncül bakış açısı kazandırması açısından önemli buluyorum. Kısa Kısa Tek Hücre Dizileme Teknolojileri Tek hücre izolasyonuna (FACS, droplet microfluidics etc.) Çıktı Sayısı/Throughput (Cell, detection limit etc.) Boncuk Tipi (Bead type etc.) Yer ve Zaman (Spatial, timing info ect.) Avantajlar..
Florasan Görüntü Analizine Dair Notlar
Görünteleme, bazı deneylerin önemli bir kısmını oluşturmaktadır. Bu götüntülerin analizi ve sonuçların yorumlanması da yapılan deneyin ne derece başarılı olduğuna dair bilgi sunmaktadır. Florasan Görüntüleme’ye Giriş ImageJ/Fiji’ye Giriş Basit Florasan Analizine Yönelik Kaynak Önerisi EPFLx IPA4LSxImage Processing and Analysis for Life Scientists (edX): It is a nicely organized and helpful (and free!) course for beginners like me. The instructors explain every detail very clearly (I listened in 1.5x). I highly recommend this course for the beginners of image analysis, especially the ones who are planning to use ImageJ. However, it would be nice to add more advanced version of this..
Presenter Vidit Goyal Vidit Goyal earned his Bachelors degree in Computer Science Engineering from Dr. A.P.J Abdul Kalam Technical University, India. He is also studying Bioinformatics and Artificial Intelligence from various MOOCs. His thesis focused on Early Detection of Skin Cancers Using Deep Learning CNN. He is currently working on developing vaccine using openAI under the AI firm Montreal.AI. Abstract Over the last few years, there has been a rise in the reports of skin cancer in Asian continents. Regular skin checkups are recommended by dermatologist to identify the skin cancer in their initial stages. Hence, to assist this process,..
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