ŞEBNEM EŞSİZ

Dr. Öğr. Üyesi
 ŞEBNEM EŞSİZ

D BLOK 3. KAT 329

+90 (212) 533 65 32 / 1437

sebnem.gokhan@khas.edu.tr

https://sites.khas.edu.tr/bioinformatics/research/sebnem-essiz

ORCID

Eğitim

Doktora

PİTTSBURGH ÜNİVERSİTESİ
Biyofiziksel Kimya

Lisans

KOÇ ÜNİVERSİTESİ
Kimya

Araştırma Alanları

  • Hesaplamalı Yapısal Biyoloji ve Biyoinformatik
  • NMDA ve GABA Sinir Hücresi Reseptörleri ve Membran Proteinleri
  • Hızlandırılmış Moleküler Dinamik Simulasyonları
  • Genetik algoritma ile protein homoloji modellemesi

İş Deneyimi

2012 / Devam Eden Yard. Doç. Dr.
Kadir Has Üniversitesi

2011 / 2012 Araştırmacı
Biotechnology Dept., Lawrence Livermore National Lab, CA USA

2009 / 2010 Doktora Sonrası Araştırmacı
Department of Bioengineering, Univ. of California at San Francisco

Yayınlar

  • "Protein Homology Modeling in the Low Sequence Similarity Regime",
    Eşsiz, Şebnem; , Black Sea Journal of Engineering and Science, (2024) Vol.7, No.2, DOI: https://doi.org/10.34248/bsengineering.1402011
  • "Investigation of Structural and Antibacterial Properties of WS2-Doped ZnO Nanoparticles",
    Beytur, Sercan ; ESSIZ, Sebnem ; Ozugur, Bengu ; , ACS Omega, (2024) Vol.9, 4037 DOI: 10.1021/acsomega.3c09041
  • "Synthesis of New Imidazo[1,2-a]pyridine Triazole Hybrid Molecules as Potential Apoptotic Antitumor Agents",
    Albayrak Halac, Fatma; Essiz, Sebnem; Servili, Burak; Altundas, Ramazan; Onur Sucu, Bilgesu; Kulu, Irem; , ChemistrySelect, (2024) Vol.9, No.8, DOI: 10.1002/slct.202304911
  • "Newly synthesized 6-substituted piperazine/phenyl-9-cyclopentyl containing purine nucleobase analogs act as potent anticancer agents and induce apoptosis via inhibiting Src in hepatocellular carcinoma cells",
    Bilget Guven, Ebru; Durmaz Sahin, Irem; Altiparmak, Duygu; Servili, Burak; Essiz, Sebnem; Cetin-Atalay, Rengul; Tuncbilek, Meral; , RSC Medicinal Chemistry, (2023) DOI: 10.1039/d3md00440f
  • "Sustainable production of formic acid from CO2 by a novel immobilized mutant formate dehydrogenase",
    Tülek, Ahmet; Günay, Elif; Servili, Burak; Essiz, Sebnem; Binay, Barış; Yildirim, Deniz; , Separation and Purification Technology, (2023) Vol.309, DOI: 10.1016/j.seppur.2022.123090
  • "Investigation of Structural and Antibacterial Properties of WS2-Doped ZnO Nanoparticles",
    Beytür, Sercan; Essiz, Sebnem; Özuğur Uysal, Bengü; , ACS Omega, (2023) DOI: 10.1021/acsomega.3c09041
  • "Modelling of C-terminal tail of human STING and its interaction with tank-binding kinase 1",
    Ata Ouda Al-Masri, Rahaf; Audu-Bida, Hajara; Eşsiz, Şebnem; , Turkish Journal of Biology, (2022) Vol.46, No.1, 69-81 DOI: 10.3906/biy-2108-90
  • "Correlated conformational dynamics of the human GluN1-GluN2A type N-methyl-D-aspartate (NMDA) receptor",
    Essiz, Sebnem; Gencel, Melis; Aktolun, Muhammed; Demir, Ayhan; Carpenter, Timothy S.; Servili, Burak; , Journal of Molecular Modeling, (2021) Vol.27, No.6, DOI: 10.1007/s00894-021-04755-8
  • "Corrigendum to “Discovery of new azoles with potent activity against Candida spp. and Candida albicans biofilms through virtual screening” [Eur. J. Med. Chem. 179 (2019) 634–648](S0223523419306105)(10.1016/j.ejmech.2019.06.083)",
    Sari, Suat; Kart, Didem; Öztürk, Naile; Kaynak, F. Betül; Gencel, Melis; Taşkor, Gülce; Karakurt, Arzu; Saraç, Selma; Eşsiz, Şebnem; Dalkara, Sevim; , European Journal of Medicinal Chemistry, (2020) Vol.190, DOI: 10.1016/j.ejmech.2020.112130
  • "Synthesis, biological evaluation and molecular docking studies of bis-chalcone derivatives as xanthine oxidase inhibitors and anticancer agents",
    Burmaoglu, Serdar; Ozcan, S.; Balcioglu, S.; Gencel, M.; Noma, Samir Abbas Ali; Essiz, Sebnem; Ates, Burhan; Algul, Oztekin; , Bioorganic Chemistry, (2019) Vol.91, DOI: 10.1016/j.bioorg.2019.103149
  • "Discovery of new azoles with potent activity against Candida spp. and Candida albicans biofilms through virtual screening",
    Sari, Suat; Kart, D.; Öztürk, N.; Kaynak, F. Betül; Gencel, M.; Taşkor, Gülce; Karakurt, Arzu; Saraç, S.; Eşsiz, Şebnem; Dalkara, S.; , European Journal of Medicinal Chemistry, (2019) Vol.179, 634-648 DOI: 10.1016/j.ejmech.2019.06.083
  • "Antifungal screening and in silico mechanistic studies of an in-house azole library",
    Sari, Suat; Kart, Didem; Sabuncuoğlu, Suna; Doğan, İnci Selin; Özdemir, Zeynep; Bozbey, İrem; Gencel, Melis; Eşsiz, Şebnem; Reynisson, Jóhannes; Karakurt, Arzu; Saraç, Selma; Dalkara, Sevim; , Chemical Biology and Drug Design, (2019) Vol.94, No.5, 1944-1955 DOI: 10.1111/cbdd.13587
  • "The neural γ2α1β2α1β2 gamma amino butyric acid ion channel receptor: structural analysis of the effects of the ivermectin molecule and disulfide bridges",
    Ayan, Meral; Essiz, Sebnem; , Journal of Molecular Modeling, (2018) Vol.24, No.8, DOI: 10.1007/s00894-018-3739-z
  • "New azole derivatives showing antimicrobial effects and their mechanism of antifungal activity by molecular modeling studies",
    Doğan, İnci Selin; Saraç, Selma; Sari, Suat; Kart, Didem; Eşsiz Gökhan, Şebnem; Vural, İmran; Dalkara, Sevim; , European Journal of Medicinal Chemistry, (2017) Vol.130, 124-138 DOI: 10.1016/j.ejmech.2017.02.035
  • "A wrench in the works of human acetylcholinesterase: Soman induced conformational changes revealed by molecular dynamics simulations",
    Bennion, Brian J.; Essiz, Sebnem G.; Lau, Edmond Y.; Fattebert, Jean Luc; Emigh, Aiyana; Lightstone, Felice C.; , PLoS ONE, (2015) Vol.10, No.4, DOI: 10.1371/journal.pone.0121092
  • "Computational analysis of a Zn-bound tris(imidazolyl) calix[6]arene aqua complex: Toward incorporating second-coordination sphere effects into carbonic anhydrase biomimetics",
    Koziol, Lucas; Essiz, Sebnem G.; Wong, Sergio E.; Lau, Edmond Y.; Valdez, Carlos A.; Satcher, Joe H.; Aines, Roger D.; Lightstone, Felice C.; , Journal of Chemical Theory and Computation, (2013) Vol.9, No.3, 1320-1327 DOI: 10.1021/ct3008793
  • "Dynamic linear response theory for conformational relaxation of proteins",
    Essiz, Sebnem G.; Coalson, Rob D.; , Journal of Physical Chemistry B, (2009) Vol.113, No.31, 10859-10869 DOI: 10.1021/jp900745u
  • "Langevin dynamics of molecules with internal rigid fragments in the harmonic regime",
    Essiz, Sebnem G.; Coalson, Rob D.; , Journal of Chemical Physics, (2007) Vol.127, No.10, DOI: 10.1063/1.2756044
  • "A rigid-body Newtonian propagation scheme based on instantaneous decomposition into rotation and translation blocks",
    Essiz, Sebnem; Coalson, Rob D.; , Journal of Chemical Physics, (2006) Vol.124, No.14, DOI: 10.1063/1.2158996
  • "A coarse graining approach in molecular simulations: Fuzzy potentials",
    Eşsiz, Şebnem; Yurtsever, Ersin; , ARI Bulletin of the Istanbul Technical University, (2003) Vol.53, No.1, 25-28
  • "A coarse graining approach in molecular simulations: Fuzzy potentials",
    Eşsiz, Şebnem; Yurtsever, Ersin; , Bulletin of the Technical University of Istanbul, (2003) Vol.53, No.1, 25-28

Projeler

Proje Adı Görevi Proje Türü Fonlayan Kuruluş Başlangıç Tarihi Bitiş Tarihi
"NMDA Tipi Glutamat Reseptörlerinin Çalışma Mekanizması ve Açık İyon Kanalı İnhibitörleri ile Etkileşimleri / Gating Mechanism of NMDA type Ionotropic Glutamate Receptor Model and Open Channel" Yürütücü Ulusal Proje TÜBİTAK ARDEB 01.04.2014
 01.11.2018

Verilen Dersler

Ders Adı Ders Kodu Dönem
Kimyada Çok Ölçekli Modelleme CSE610 2024/25 Bahar
Protein Katlaması MBG318 2024/25 Bahar
Yapısal Biyoinformatik MBG428 2024/25 Bahar
Protein Hareketleri CSE605 2024/25 Güz
Biyopython MBG309*1 2024/25 Güz
Proteinler ve Dinamik Özellikleri MBG429 2024/25 Güz

 

Lisansüstü Tez Danışmanlıkları

ÖĞRENCİDERECE/SENEGÜNCEL POZİSYONLARI
SERCAN BEYTÜRPhD/2023Bioinformatician, Paris 
BURAK SERVILIPhD/2023Core Program, KHAS
SEVILAY GÜLESENMS/2021University of Leipzig, Germany
BÜSRA SAVASMS/2021Izmir Biomedicine and Genome Center
MELIS GENCELMS/2019Université de Montréal, QC Canada
MUHAMMED AKTOLUNMS/2017Carnegie Mellon University, PA USA
AYHAN DEMIRMS/2017TUSEB, Turkiye
FATMA M AB ALNEMSIMS/2016-
MERAL AYANMS/2014Mentor Egitim Kurumlari, Turkiye