Now showing items 1-20 of 37

    • Adjuvant autologous melanoma vaccine for macroscopic stage III disease: survival, biomarkers, and improved response to CTLA-4 blockade 

      Lotem, M.; Merims, S.; Frank, S.; Hamburger, T.; Nissan, A.; Kadouri, L.; Cohen, J.; Straussman, R.; Eisenberg, G.; Frankenburg, S.; Carmon, E.; Alaiyan, B.; Shneibaum, S.; Ayyildiz, Z. O.; Isbilen, M.; Senses, K. M.; Ron, I.; Steinberg, H.; Smith, Y.; Shiloni, E.; Gure, A. O.; Peretz, T. (Hindawi Limited, 2016)
      Background. There is not yet an agreed adjuvant treatment for melanoma patients with American Joint Committee on Cancer stages III B and C. We report administration of an autologous melanoma vaccine to prevent disease ...
    • Approximate fourier domain expression for bloch-siegert shift 

      Turk, E. A.; Ider, Y. Z.; Ergun, A. S.; Atalar, E. (John Wiley and Sons Inc., 2015)
      Purpose: In this study, a newsimple Fourier domain-based analytical expression for the Bloch-Siegert (BS) shift-based B1 mapping method is proposed to obtain |B1+| more accurately while using short BS pulse durations and ...
    • The characterization and potential functional role of wdr81, a novel zebrafish gene, associated with cerebellar ataxia, mental retardation and dysequilibrium syndrome (camrq) in humans 

      Doldur Ballı, Füsun (Bilkent University, 2016-04)
      Cerebellar ataxia, mental retardation and dysequilibrium syndrome (CAMRQ) is a neurodevelopmental disorder. The gene encoding WD repeat containing protein 81 (WDR81) was reported to be associated with CAMRQ2 [MIM 610185]. ...
    • Colon cancer associated transcript-1 (CCAT1) expression in adenocarcinoma of the stomach 

      Mizrahi, I.; Mazeh, H.; Grinbaum, R.; Beglaibter, N.; Wilschanski, M.; Pavlov, V.; Adileh, M.; Stojadinovic, A.; Avital, I.; Gure, A. O.; Halle, D.; Nissan, A. (Ivyspring International Publisher, 2015)
      Background: Long non-coding RNAs (lncRNAs) have been shown to have functional roles in cancer biology and are dys-regulated in many tumors. Colon Cancer Associated Transcript -1 (CCAT1) is a lncRNA, previously shown to be ...
    • Endothelial progenitor cells display clonal restriction in multiple myeloma 

      Braunstein, M.; Özçelik, T.; Baǧişlar, S.; Vakil, V.; Smith, E. L. P.; Dai, K.; Akyerli, C. B.; Batuman O. A. (BioMed Central Ltd., 2006)
      Background: In multiple myeloma (MM), increased neoangiogenesis contributes to tumor growth and disease progression. Increased levels of endothelial progenitor cells (EPCs) contribute to neoangiogenesis in MM, and, ...
    • Expression of IFITM1 in chronic myeloid leukemia patients 

      Akyerli, C. B.; Beksac, M.; Holko, M.; Frevel, M.; Dalva, K.; Özbek, U.; Soydan, E.; Özcan, M.; Özet, G.; İlhan, O.; Gürman, G.; Akan, H.; Williams, B. R. G.; Özçelik, T. (Elsevier, 2005)
      We investigated the peripheral blood gene expression profile of interferon induced transmembrane protein 1 (IFITM1) in sixty chronic myeloid leukemia (CML) patients classified according to new prognostic score (NPS). IFITM1 ...
    • Functional genomics in translational cancer research: focus on breast cancer 

      Yulug, I. G.; Gur-Dedeoglu, B. (Oxford University Press, 2008)
      Conventional molecular and genetic methods for studying cancer are limited to the analysis of one locus at a time. A cluster of genes that are regulated together can be identified by DNA microarray, and the functional ...
    • Functionally conserved effects of rapamycin exposure on zebrafish 

      Sucularli, C.; Shehwana, H.; Kuscu, C.; Dungul, D. C.; Ozdag, H.; Konu, O. (Spandidos Publications, 2016-03)
      Mechanistic target of rapamycin (mTOR) is a conserved serine/threonine kinase important in cell proliferation, growth and protein translation. Rapamycin, a well-known anti-cancer agent and immunosuppressant drug, inhibits ...
    • G-network modelling based abnormal pathway detection in gene regulatory networks 

      Kim H.; Atalay, Rengül; Gelenbe, E. (Springer, London, 2012)
      Gene expression centered gene regulatory networks studies can provide insight into the dynamics of pathway activities that depend on changes in their environmental conditions. Thus we propose a new pathway analysis approach ...
    • Genetics and epigenetics of liver cancer 

      Özen, Çiğdem; Yıldız, Gökhan; Dağcan, Alper Tunga; Çevik, Dilek; Örs, Ayşegül; Keleş, Umut; Topel, Hande; Öztürk, Mehmet (Elsevier B.V., 2013)
      Hepatocellular carcinoma (HCC) represents a major form of primary liver cancer in adults. Chronic infections with hepatitis B (HBV) and C (HCV) viruses and alcohol abuse are the major factors leading to HCC. This deadly ...
    • Identification of differentially expressed microRNAs during lipotoxic endoplasmic reticulum stress in RAW264.7 macrophages 

      Nadir, M.; Tufanlı, Ö.; Erbay, E.; Atalay, A. (Turkish Biochemistry Society, 2016-06)
      Objective: Increased fatty acids in the circulation and their accumulation in non-adipose tissues play a significant role in the development of obesity related metabolic and inflammatory disorders such as insulin resistance, ...
    • Identification of genes induced by BRCA1 in breast cancer cells 

      Atalay, A.; Crook, T.; Ozturk, M.; Yulug, I. G. (Academic press, 2002)
      Inherited mutations of the BRCA1 gene predispose to breast, ovarian, and other cancers. The role of the BRCA1 gene in the maintenance of chromosomal integrity is linked to a number of biological properties of its protein ...
    • Integrating biological pathways and genomic profiles with ChiBE 2 

      Babur, O.; Dogrusoz, U.; Çakır, M.; Aksoy, B. A.; Schultz, N.; Sander, C.; Demir, E. (BioMed Central Ltd., 2014)
      Background: Dynamic visual exploration of detailed pathway information can help researchers digest and interpret complex mechanisms and genomic datasets.Results: ChiBE is a free, open-source software tool for visualizing, ...
    • Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal 

      Gao J.; Aksoy, B. A.; Dogrusoz, U.; Dresdner, G.; Gross, B.; Sumer, S. O.; Sun, Y.; Jacobsen, A.; Sinha, R.; Larsson, E.; Cerami, E.; Sander, C.; Schultz, N. (American Association for the Advancement of Science (A A A S), 2013)
      The cBioPortal for Cancer Genomics (http://cbioportal.org) provides a Web resource for exploring, visualizing, and analyzing multidimensional cancer genomics data. The portal reduces molecular profiling data from cancer ...
    • Integromic analysis of genetic variation and gene expression identifies networks for cardiovascular disease phenotypes 

      Yao, C.; Chen, B. H.; Joehanes, R.; Otlu, B.; Zhang X.; Liu, C.; Huan, T.; Tastan, O.; Cupples, L. A.; Meigs, J. B.; Fox, C. S.; Freedman, J. E.; Courchesne, P.; O'Donnell, C. J.; Munson, P. J.; Keles, S.; Levy, D. (Lippincott Williams & Wilkins, 2015)
      BACKGROUND - : Cardiovascular disease (CVD) reflects a highly coordinated complex of traits. Although genome-wide association studies have reported numerous single nucleotide polymorphisms (SNPs) to be associated with CVD, ...
    • Investigating the mechanisms of telomere maintenance in zebrafish tissues and human brain cancer cell lines 

      Şerifoğlu, Naz (Bilkent University, 2019-09)
      Telomeres are nucleoprotein complexes formed at each end of the chromosomes to protect these ends from deterioration. In each round of cellular division, telomeric sequences shorten due to the end replication problem of ...
    • Investigation and comparison of the preprocessing algorithms for microarray analysis for robust gene expression calculation and performance analysis of technical replicates 

      İlk, H. G.; İlk, Ö.; Konu, Özlen; Özdağ, H. (IEEE, 2006)
      Preprocessing of microarray data involves the necessary steps of background correction, normalization and summarization of the raw intensity data obtained from cDNA or oligo-arrays before statistical analysis. Several ...
    • MDM2 T309G polymorphism is associated with bladder cancer 

      Onat, O. E.; Tez, M.; Özçelik, T.; Törüner, G. A. (International Institute of Anticancer Research, 2006)
      Recently, a functional T to G polymorphism at nucleotide 309 in the promoter region of the MDM2 gene (rs: 2279744, SNP 309) has been identified. This polymorphism has an impact on the expression of the MDM2 gene, which is ...
    • MESAdb: microRNA expression and sequence analysis database 

      Kaya, K. D.; Karakülah, G.; Yakıcıer, C. M.; Acar, A. C.; Konu, Ö. (Oxford University Press, 2011)
      MicroRNA expression and sequence analysis database (http://konulab.fen. bilkent.edu.tr/mirna/) (mESAdb) is a regularly updated database for the multivariate analysis of sequences and expression of microRNAs from multiple ...
    • Metastasis suppressor proteins in cutaneous squamous cell carcinoma 

      Bozdogan, O.; Vargel, I.; Cavusoglu, T.; Karabulut, A. A.; Karahan, G.; Sayar, N.; Atasoy, P.; Yulug, I. G. (Elsevier, 2016-07)
      Cutaneous squamous cell carcinomas (cSCCs) are common human carcinomas. Despite having metastasizing capacities, they usually show less aggressive progression compared to squamous cell carcinoma (SCC) of other organs. ...