Anıl Özdemir

ORCID: 0000-0003-0014-4699
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About
Contact & Profiles
Research Areas
  • Genomics and Chromatin Dynamics
  • Modular Robots and Swarm Intelligence
  • Optimization and Search Problems
  • Peer-to-Peer Network Technologies
  • Opportunistic and Delay-Tolerant Networks
  • Micro and Nano Robotics
  • Distributed Control Multi-Agent Systems
  • Neural Networks and Reservoir Computing
  • Plant Molecular Biology Research
  • Advanced Memory and Neural Computing
  • Developmental Biology and Gene Regulation
  • Fungal and yeast genetics research
  • Neurobiology and Insect Physiology Research
  • DNA and Biological Computing
  • Topological and Geometric Data Analysis
  • Advanced biosensing and bioanalysis techniques
  • Congenital heart defects research
  • Mathematical Dynamics and Fractals
  • Game Theory and Applications
  • Histone Deacetylase Inhibitors Research
  • Retinal Development and Disorders
  • DNA and Nucleic Acid Chemistry
  • Glaucoma and retinal disorders
  • Neural dynamics and brain function
  • Advanced Materials and Mechanics

University of Sheffield
2018-2022

Corvallis Environmental Center
2020

Sabancı Üniversitesi
2020

California Institute of Technology
2010-2014

Radboud Institute for Molecular Life Sciences
2004-2006

Radboud University Medical Center
2004-2006

Radboud University Nijmegen
2004-2006

Boğaziçi University
2004

It has been shown in several organisms that multiple cis-regulatory modules (CRMs) of a gene locus can be active concurrently to support similar spatiotemporal expression. To understand the functional importance such seemingly redundant CRMs, we examined two CRMs from Drosophila snail locus, which are both ventral region pre-gastrulation embryos. By performing deletion series ∼25 kb DNA rescue construct using BAC recombineering and site-directed transgenesis, demonstrate not redundant. The...

10.1242/dev.069146 article EN Development 2011-08-04

Post-translational histone modifications abound and regulate multiple nuclear processes. Most are targeted to the amino-terminal domains of histones. Here we report identification characterization acetylation lysine 56 within core domain H3. In crystal structure nucleosome, contacts DNA. Phenotypic analysis suggests that is critical for function it modulates formamide resistance, ultraviolet radiation sensitivity, sensitivity hydroxyurea. We show acetylated form H3 (H3-K56) present during...

10.1074/jbc.c500181200 article EN cc-by Journal of Biological Chemistry 2005-05-12

The NK homeodomain factor Tinman is a crucial regulator of early mesoderm patterning and, together with the GATA Pannier and Dorsocross T-box factors, serves as one key cardiogenic factors during specification differentiation heart cells. Although basic framework regulatory interactions driving development has been worked out, only about dozen genes involved in have designated direct target to date, detailed information functional architectures their cardiac enhancers lacking. We used...

10.1371/journal.pgen.1003195 article EN cc-by PLoS Genetics 2013-01-10

Cis -regulatory modules (CRMs) function by binding sequence specific transcription factors, but the relationship between in vivo physical and regulatory capacity of factor-bound DNA elements remains uncertain. We investigate this for well-studied Twist factor Drosophila melanogaster embryos analyzing genome-wide occupancy testing functional significance occupied regions motifs within regions. ChIP-seq data efficiently identified previously studied Twist-dependent CRMs robustly predicted new...

10.1101/gr.104018.109 article EN cc-by-nc Genome Research 2011-03-07

A canonical problem for swarms of agents is to collectively choose one multiple options in their environment. We present a novel control strategy solving this problem—the first be free arithmetic computation. The do not communicate with each other nor they store run-time information. They have line-of-sight sensor that extracts ternary digit information from the At every time step, directly map onto constant-value motor commands. evaluate both simulated and physical e-puck robots. By...

10.1109/lra.2018.2795640 article EN cc-by IEEE Robotics and Automation Letters 2018-01-19

Recognising previously visited locations is an important, but unsolved, task in autonomous navigation. Current visual place recognition (VPR) benchmarks typically challenge models to recover the position of a query image (or images) from sequential datasets that include both spatial and temporal components. Recently, Echo State Network (ESN) varieties have proven particularly powerful at solving machine learning tasks require spatio-temporal modelling. These networks are simple, yet neural...

10.1109/lra.2022.3150505 article EN IEEE Robotics and Automation Letters 2022-02-12

We study the problem of controlling a swarm anonymous, mobile robots to cooperatively cover an unknown two-dimensional space. The novelty our proposed solution is that it applicable extremely simple lack run-time computation or storage. requires only single bit information per robot-whether not another robot present in its line sight. Computer simulations show deterministic controller, which was obtained through off-line optimization, achieves around 71-76% coverage test scenario with no...

10.1109/icra.2019.8793731 article EN 2022 International Conference on Robotics and Automation (ICRA) 2019-05-01

Abstract Fibroblast growth factors (FGFs) are important regulators of retinal development and survival. We examined the expression distribution FGF9 its preferred receptors FGFR2IIIc FGFR3IIIc in this tissue. transcripts whole rat retina were detected by RT‐PCR but not present purified cultured Müller glia. Transcripts appeared as 3.2‐kb 4.0‐kb bands on Northern blots, Western blotting revealed FGF9‐immunoreactive at 30 55 kDa. mRNA demonstrated a biphasic profile, elevated birth adulthood,...

10.1002/jnr.20363 article EN Journal of Neuroscience Research 2004-12-21

This paper summarizes our group’s efforts in the offensive language identification shared task, which is organized as part of International Workshop on Semantic Evaluation (Sem-Eval2020). Our final submission system an ensemble three different models, (1) CNN-LSTM, (2) BiLSTM-Attention and (3) BERT. Word embeddings, were pre-trained tweets, are used while training first two models. BERTurk, BERT model for Turkish, also explored. submitted approach ranked second best Turkish sub-task.

10.18653/v1/2020.semeval-1.288 article EN cc-by 2020-01-01

There was an error published in Development138, 4075-4084.The authors inadvertently re-displayed the image from Fig. 1D 1B. The corrected 1 is shown below. This change does not affect or alter results conclusions of study.The apologise to readers for this mistake.In addition, wish clarify that images 6A, 6B and 6C are unmanipulated versions those 5D, 5B 5A, respectively.

10.1242/dev.074377 article EN Development 2011-09-21

Modular reconfigurable robots are touted for their flexibility, as bodies can assume a wide range of shapes. A particular challenge is to make them move efficiently in 3D without compromising the scalability system. This paper proposes decentralized and fully reactive controllers pose control modular robots. The operate liquid environments, by routing fluid through themselves. Each module uses only two bits sensory information per face. Additionally, modules use up five that exchanged via...

10.1109/iros40897.2019.8967698 article EN 2021 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS) 2019-11-01

Modular robotic systems comprise groups of physically connected modules which can be reconfigured to create morphologies that suit an environment or task.One method reconfiguration is via subtraction, where extraneous disconnect from initial configuration, before being removed by external intervention.In this paper, we consider approach in two dimensions, here termed active unwanted traverse a configuration order remove themselves safely, without the need for intervention, making it form...

10.15607/rss.2020.xvi.014 article EN 2020-06-30

We propose stochastic control policies for gathering a group of embodied agents in two-dimensional square tile environment. The are fully decentralized and can be executed on anonymous, oblivious with chirality, but no sense orientation. require only 4 ternary digits information. prove that agents, irrespective initial positions, will almost surely reach Pareto optimal configuration finite time. For one the policies, computer simulations show groups up to 20 consistently configurations,...

10.1109/mrs.2019.8901074 article EN 2019-08-01
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