Ancient genomics in Anatolia: challenges and opportunities

The increasing availability of ancient genomes has been accelerating studies in a number of fields, including human history, molecular evolution, and conservation biology. The METU/Hacettepe Ancient DNA Group has been contributing to these endeavors by producing and analyzing ancient DNA data from archaeological human and animal remains of Anatolian origin, from the last 10,000 years. However, the temperate climate conditions across most parts of Anatolia drive rapid DNA degradation, and most biological material examined harbor only trace amounts of endogenous DNA (median <1% of shotgun sequenced molecules). Hence, the genomes produced are typically only partial (median <0.1x coverage). In this talk, I will discuss different computational approaches to overcome the limitations posed by extremely low coverage data. I will further share examples of new genetic-based insights into Anatolian human societies from 10,000 years ago, including their regional movements and social traditions.


Ancient DNA isolation and mitochondrial DNA analysis of human samples from Çemialo Sırtı, Batman in Southeast Anatolia
Yaka, Reyhan; Togan, İnci Zehra; Department of Biology (2015)
The main purpose of the study was to obtain aDNA sequences of ancient human remains in the dedicated ancient DNA (aDNA) laboratory which was established at Middle East Technical University, in 2012. For this purpose, human samples approximately dating between 600-500 BC from Çemialo Sırtı excavation site in Batman in southeast Anatolia, were employed. aDNA extraction was performed using bone and teeth samples from 9 human skeletal remains. Then the mitochondrial DNA (mtDNA) Hypervariable region I and Hyperv...
Ekşi, Elçin; Kalaylıoğlu Akyıldız, Zeynep Işıl; Department of Archaeometry (2023-2-02)
Extinction and origination of species are fundamental to the process of evolution, a dynamic force that shapes the history of life. These processes are studied with different motivations in both paleontology and ecology. In some cases, obtaining sufficient population data for the studied species is impossible. For example, fossils of an extinct species or data from an endangered and rare species offer limited analysis. In such cases, it is possible to predict the extinction time of a species by analyzing th...
A survey of form creation processes within the evolution of the organic tradition in architecture
Ruhi, Işıl; Mennan, Zeynep; Department of Architecture (2008)
Beginning with the developments in biological sciences since the 1750s, many scientists have been exploring the characteristics of Nature and the living. These developments, not only enabled humans to understand the interrelations among natural beings, but also influenced and shaped an organic tradition of architectural design during modernity. In many contemporary computer-aided projects, organicity is still seen to hold a decisive though different role in formal processes, as well as acting as a guide in ...
Criteria for the Evaluation of Workflow Management Systems for Scientific Data Analysis
Dilan Kiran, Aleyna; Ay, Mehmet Can; Alllmer, Jens (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10)
Many scientific endeavors, such as molecular biology, have become dependent on largescale data and its analysis. For example, precision medicine depends on molecular measurements and data analysis on a per-patient basis. Data analysis, supporting medical decisions, has to be standardized and performed in a consistent manner across patients. While perhaps not life-threatening, data analyses in basic research have become increasingly complex. RNA-seq data, for example, entails a multi-step analysis ranging fr...
Optimization and dynamics of gene-environment networks with intervals
Uğur, Ömür (2007-05-01)
There are a few areas of science and technology which are only as challenging, emerging and promising as computational biology. This area is looking for its mathematical foundations, for methods of prediction while guaranteeing robustness, and it is of a rigorous interdisciplinary nature. In this paper, we deepen and extend the approach of learning gene-expression patterns in the framework of gene-environment networks by optimization, especially, generalized semi-infinite optimization (GSIP). With respect t...
Citation Formats
M. Somel, “Ancient genomics in Anatolia: challenges and opportunities,” presented at the THE 12TH INTERNATIONAL SYMPOSIUM ON HEALTH INFORMATICS AND BIOINFORMATICS, 17 - 19 Ekim 2019, 2019, Accessed: 00, 2021. [Online]. Available: