Ibrahim Baris

Dr. Ibrahim Baris

orcid

Research Focus & Metrics

Academic Career Length

26Years (2001-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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9 January 2017 in Photochemistry and Photobiology
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Journal Article
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İKİbrahim Kavakli
İbrahim Kavakli
IBIbrahim Baris
Ibrahim Baris
MTMehmet Tardu
Mehmet Tardu
ŞGŞeref Gül
Şeref Gül
HÖHaşimcan Öner
Haşimcan Öner
CACihan Aydın
Cihan Aydın

19 August 2004 in Brain
Verified
Journal Article
Open access
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YPYesim Parman
Yesim Parman
EBEsra Battaloglu
Esra Battaloglu
IBIbrahim Baris
Ibrahim Baris
BBBirdal Bilir
Birdal Bilir
MPMürüvvet Poyraz
Mürüvvet Poyraz
GSG Said
G Said
Autosomal recessive demyelinating Charcot–Marie–Tooth disease (CMT4), Dejerine–Sottas disease and congenital hypomyelinating neuropathy are variants of hereditary demyelinating neuropathy of infancy, a genetically heterogeneous group of disorders. To explore the spectrum of early-onset demyelinating neuropathies further, we studied the clinicopathological and genetic aspects of 20 patients born to unaffected parents. In 19 families out of 20, consanguinity between the parents or presence of an affected sib suggested autosomal recessive transmission. Screening of various genes known to be involved in CMT4 revealed six mutations of which five are novel. Four of these novel mutations occurred in the homozygous state and include: one in GDAP1, one in MTMR2, one in PRX and one in KIAA1985. One patient was heterozygous for a novel MTMR2 mutation and still another was homozygous for the founder mutation, R148X, in NDRG1. All patients tested negative for mutations in EGR2. Histopathological examination of nerve biopsy specimens showed a severe, chronic demyelinating neuropathy, with onion bulb formation, extensive demyelination of isolated fibres and axon loss. We did not discern a specific pattern of histopathology that could be correlated to mutations in a particular gene.

1 October 2013 in Methods
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Journal Article
Closed access
OCOnur Cakmak
Onur Cakmak
Caglar ElbukenCaglar Elbuken
Caglar Elbuken
EEErhan Ermek
Erhan Ermek
AMAref Mostafazadeh
Aref Mostafazadeh
IBIbrahim Baris
Ibrahim Baris
HUHakan Urey
Hakan Urey

10 October 2014 in Lab on a Chip
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Journal Article
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OCO. Cakmak
O. Cakmak
EEE. Ermek
E. Ermek
NKNecmettin Kilinc
Necmettin Kilinc
SBS. Bulut
S. Bulut
IBIbrahim Baris
Ibrahim Baris
HÜHakan Ürey
Hakan Ürey
A new cantilever-based system enabling multiple coagulation tests on the same disposable cartridge is demonstrated.

15 February 2012 in PLOS ONE
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Journal Article
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BÇBilal Çakir
Bilal Çakir
ODOnur Dağliyan
Onur Dağliyan
EDEzgi Dağyildiz
Ezgi Dağyildiz
IBIbrahim Baris
Ibrahim Baris
İKİbrahim Kavakli
İbrahim Kavakli
MTMetin Turkay
Metin Turkay
Insulin-degrading enzyme (IDE) is an allosteric Zn+2 metalloprotease involved in the degradation of many peptides including amyloid-β, and insulin that play key roles in Alzheimer's disease (AD) and type 2 diabetes mellitus (T2DM), respectively. Therefore, the use of therapeutic agents that regulate the activity of IDE would be a viable approach towards generating pharmaceutical treatments for these diseases. Crystal structure of IDE revealed that N-terminal has an exosite which is ∼30 Å away from the catalytic region and serves as a regulation site by orientation of the substrates of IDE to the catalytic site. It is possible to find small molecules that bind to the exosite of IDE and enhance its proteolytic activity towards different substrates. In this study, we applied structure based drug design method combined with experimental methods to discover four novel molecules that enhance the activity of human IDE. The novel compounds, designated as D3, D4, D6, and D10 enhanced IDE mediated proteolysis of substrate V, insulin and amyloid-β, while enhanced degradation profiles were obtained towards substrate V and insulin in the presence of D10 only. This paper describes the first examples of a computer-aided discovery of IDE regulators, showing that in vitro and in vivo activation of this important enzyme with small molecules is possible.

14 September 2010 in BMC Molecular Biology
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NONatali Ozber
Natali Ozber
IBIbrahim Baris
Ibrahim Baris
GTGulnaz Tatlici
Gulnaz Tatlici
IGIbrahim Gur
Ibrahim Gur
SKSeda Kilinc
Seda Kilinc
İKİbrahim Kavakli
İbrahim Kavakli
Background: Cryptochromes (CRYs) are a class of flavoprotein blue-light signaling receptors found in plants and animals, and they control plant development and the entrainment of circadian rhythms. They also act as integral parts of the central circadian oscillator in humans and other animals. In mammals, the CLOCK-BMAL1 heterodimer activates transcription of the Per and Cry genes as well as clock-regulated genes. The PER2 proteins interact with CRY and CKIε, and the resulting ternary complexes translocate into the nucleus, where they negatively regulate the transcription of Per and Cry core clock genes and other clock-regulated output genes. Recent studies have indicated that the extended C-termini of the mammalian CRYs, as compared to photolyase proteins, interact with PER proteins. Results: We identified a region on mCRY2 (between residues 493 and 512) responsible for direct physical interaction with mPER2 by mammalian two-hybrid and co-immunoprecipitation assays. Moreover, using oligonucleotide-based degenerate PCR, we discovered that mutation of Arg-501 and Lys-503 of mCRY2 within this C-terminal region totally abolishes interaction with PER2. Conclusions: Our results identify mCRY2 amino acid residues that interact with the mPER2 binding region and suggest the potential for rational drug design to inhibit CRYs for specific therapeutic approaches.