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Items: 1 to 50 of 52

1.

Higher proteotoxic stress rather than mitochondrial damage is involved in higher neurotoxicity of bortezomib compared to carfilzomib.

Jannuzzi AT, Arslan S, Yilmaz AM, Sari G, Beklen H, Méndez L, Fedorova M, Arga KY, Karademir Yilmaz B, Alpertunga B.

Redox Biol. 2020 Mar 21;32:101502. doi: 10.1016/j.redox.2020.101502. [Epub ahead of print]

2.

New Machine Learning Applications to Accelerate Personalized Medicine in Breast Cancer: Rise of the Support Vector Machines.

Ozer ME, Sarica PO, Arga KY.

OMICS. 2020 Mar 31. doi: 10.1089/omi.2020.0001. [Epub ahead of print]

PMID:
32228365
3.

Pan-cancer mapping of differential protein-protein interactions.

Gulfidan G, Turanli B, Beklen H, Sinha R, Arga KY.

Sci Rep. 2020 Feb 24;10(1):3272. doi: 10.1038/s41598-020-60127-x.

4.

Mapping the Molecular Basis and Markers of Papillary Thyroid Carcinoma Progression and Metastasis Using Global Transcriptome and microRNA Profiling.

Akyay OZ, Gov E, Kenar H, Arga KY, Selek A, Tarkun İ, Canturk Z, Cetinarslan B, Gurbuz Y, Sahin B.

OMICS. 2020 Mar;24(3):148-159. doi: 10.1089/omi.2019.0188. Epub 2020 Feb 19.

PMID:
32073999
5.

Digging Deeper into Precision/Personalized Medicine: Cracking the Sugar Code, the Third Alphabet of Life, and Sociomateriality of the Cell.

Özdemir V, Arga KY, Aziz RK, Bayram M, Conley SN, Dandara C, Endrenyi L, Fisher E, Garvey CK, Hekim N, Kunej T, Şardaş S, Von Schomberg R, Yassin AS, Yılmaz G, Wang W.

OMICS. 2020 Feb;24(2):62-80. doi: 10.1089/omi.2019.0220. Epub 2020 Jan 28.

PMID:
32027574
6.

Systems biology based drug repositioning for development of cancer therapy.

Turanli B, Altay O, Borén J, Turkez H, Nielsen J, Uhlen M, Arga KY, Mardinoglu A.

Semin Cancer Biol. 2019 Sep 27. pii: S1044-579X(19)30265-2. doi: 10.1016/j.semcancer.2019.09.020. [Epub ahead of print] Review.

PMID:
31568815
7.

Interview with Prof. K. Yalçın Arga: A Pioneer of Multi-Omics Science and Health Care Innovation.

Arga KY.

OMICS. 2019 Sep;23(9):460-462. doi: 10.1089/omi.2019.0131. Epub 2019 Aug 20. No abstract available.

PMID:
31429661
8.

Cancer Drug Repositioning by Comparison of Gene Expression in Humans and Axolotl (Ambystoma mexicanum) During Wound Healing.

Öktem EK, Yazar M, Gulfidan G, Arga KY.

OMICS. 2019 Aug;23(8):389-405. doi: 10.1089/omi.2019.0093. Epub 2019 Jul 15.

PMID:
31305215
9.

Co-expression Network Analysis Elucidated a Core Module in Association With Prognosis of Non-functioning Non-invasive Human Pituitary Adenoma.

Aydin B, Arga KY.

Front Endocrinol (Lausanne). 2019 Jun 6;10:361. doi: 10.3389/fendo.2019.00361. eCollection 2019.

10.

Multi-Omic Data Interpretation to Repurpose Subtype Specific Drug Candidates for Breast Cancer.

Turanli B, Karagoz K, Bidkhori G, Sinha R, Gatza ML, Uhlen M, Mardinoglu A, Arga KY.

Front Genet. 2019 May 7;10:420. doi: 10.3389/fgene.2019.00420. eCollection 2019.

11.

Novel Genomic Biomarker Candidates for Cervical Cancer As Identified by Differential Co-Expression Network Analysis.

Kori M, Gov E, Arga KY.

OMICS. 2019 May;23(5):261-273. doi: 10.1089/omi.2019.0025. Epub 2019 Apr 30.

PMID:
31038390
12.

Identification of Novel Components of Target-of-Rapamycin Signaling Pathway by Network-Based Multi-Omics Integrative Analysis.

Dereli Eke E, Arga KY, Dikicioglu D, Eraslan S, Erkol E, Celik A, Kirdar B, Di Camillo B.

OMICS. 2019 May;23(5):274-284. doi: 10.1089/omi.2019.0021. Epub 2019 Apr 13.

PMID:
30985253
13.

Discovery of therapeutic agents for prostate cancer using genome-scale metabolic modeling and drug repositioning.

Turanli B, Zhang C, Kim W, Benfeitas R, Uhlen M, Arga KY, Mardinoglu A.

EBioMedicine. 2019 Apr;42:386-396. doi: 10.1016/j.ebiom.2019.03.009. Epub 2019 Mar 21.

14.

Identification of Prognostic Biomarker Signatures and Candidate Drugs in Colorectal Cancer: Insights from Systems Biology Analysis.

Rahman MR, Islam T, Gov E, Turanli B, Gulfidan G, Shahjaman M, Banu NA, Mollah MNH, Arga KY, Moni MA.

Medicina (Kaunas). 2019 Jan 17;55(1). pii: E20. doi: 10.3390/medicina55010020.

15.

Network-based approach to identify molecular signatures and therapeutic agents in Alzheimer's disease.

Rahman MR, Islam T, Turanli B, Zaman T, Faruquee HM, Rahman MM, Mollah MNH, Nanda RK, Arga KY, Gov E, Moni MA.

Comput Biol Chem. 2019 Feb;78:431-439. doi: 10.1016/j.compbiolchem.2018.12.011. Epub 2018 Dec 26.

PMID:
30606694
16.

A Network-Based Cancer Drug Discovery: From Integrated Multi-Omics Approaches to Precision Medicine.

Turanli B, Karagoz K, Gulfidan G, Sinha R, Mardinoglu A, Arga KY.

Curr Pharm Des. 2018;24(32):3778-3790. doi: 10.2174/1381612824666181106095959. Review.

PMID:
30398107
17.

Drug Targeting and Biomarkers in Head and Neck Cancers: Insights from Systems Biology Analyses.

Islam T, Rahman R, Gov E, Turanli B, Gulfidan G, Haque A, Arga KY, Haque Mollah N.

OMICS. 2018 Jun;22(6):422-436. doi: 10.1089/omi.2018.0048.

PMID:
29927717
18.

Drug Repositioning for Effective Prostate Cancer Treatment.

Turanli B, Grøtli M, Boren J, Nielsen J, Uhlen M, Arga KY, Mardinoglu A.

Front Physiol. 2018 May 15;9:500. doi: 10.3389/fphys.2018.00500. eCollection 2018. Review.

19.

The Genome-Based Metabolic Systems Engineering to Boost Levan Production in a Halophilic Bacterial Model.

Aydin B, Ozer T, Oner ET, Arga KY.

OMICS. 2018 Mar;22(3):198-209. doi: 10.1089/omi.2017.0216.

PMID:
29649388
20.

Systems biomarkers in psoriasis: Integrative evaluation of computational and experimental data at transcript and protein levels.

Sevimoglu T, Turanli B, Bereketoglu C, Arga KY, Karadag AS.

Gene. 2018 Mar 20;647:157-163. doi: 10.1016/j.gene.2018.01.033. Epub 2018 Jan 9.

PMID:
29329927
21.

Transcriptomic-Guided Drug Repositioning Supported by a New Bioinformatics Search Tool: geneXpharma.

Turanli B, Gulfidan G, Arga KY.

OMICS. 2017 Oct;21(10):584-591. doi: 10.1089/omi.2017.0127.

PMID:
29049014
22.

Multiomics Analysis of Tumor Microenvironment Reveals Gata2 and miRNA-124-3p as Potential Novel Biomarkers in Ovarian Cancer.

Gov E, Kori M, Arga KY.

OMICS. 2017 Oct;21(10):603-615. doi: 10.1089/omi.2017.0115. Epub 2017 Sep 22.

PMID:
28937943
23.

Genome reprogramming in Saccharomyces cerevisiae upon nonylphenol exposure.

Bereketoglu C, Arga KY, Eraslan S, Mertoglu B.

Physiol Genomics. 2017 Oct 1;49(10):549-566. doi: 10.1152/physiolgenomics.00034.2017. Epub 2017 Sep 8.

PMID:
28887370
24.

Differential co-expression analysis reveals a novel prognostic gene module in ovarian cancer.

Gov E, Arga KY.

Sci Rep. 2017 Jul 10;7(1):4996. doi: 10.1038/s41598-017-05298-w.

25.

Hypothesis: Are There Molecular Signatures of Yoga Practice in Peripheral Blood Mononuclear Cells?

Ayyildiz D, Arga KY.

OMICS. 2017 Jul;21(7):426-428. doi: 10.1089/omi.2017.0076. No abstract available.

PMID:
28692417
26.

RNA-based ovarian cancer research from 'a gene to systems biomedicine' perspective.

Gov E, Kori M, Arga KY.

Syst Biol Reprod Med. 2017 Aug;63(4):219-238. doi: 10.1080/19396368.2017.1330368. Epub 2017 Jun 2. Review.

PMID:
28574782
27.

Ovarian Cancer Differential Interactome and Network Entropy Analysis Reveal New Candidate Biomarkers.

Ayyildiz D, Gov E, Sinha R, Arga KY.

OMICS. 2017 May;21(5):285-294. doi: 10.1089/omi.2017.0010. Epub 2017 Apr 4.

PMID:
28375712
28.

Multiomics Approach to Novel Therapeutic Targets for Cancer and Aging-Related Diseases: Role of Sld7 in Yeast Aging Network.

Dayan IE, Arga KY, Ulgen KO.

OMICS. 2017 Feb;21(2):100-113. doi: 10.1089/omi.2016.0157. Epub 2017 Jan 24.

PMID:
28118095
29.

Transcriptomic analysis displays the effect of (-)-roemerine on the motility and nutrient uptake in Escherichia coli.

Ayyildiz D, Arga KY, Avci FG, Altinisik FE, Gurer C, Gulsoy Toplan G, Kazan D, Wozny K, Brügger B, Mertoglu B, Sariyar Akbulut B.

Curr Genet. 2017 Aug;63(4):709-722. doi: 10.1007/s00294-016-0673-4. Epub 2016 Dec 24.

PMID:
28013396
30.
31.
32.

Analysis of transcriptional profiles of Saccharomyces cerevisiae exposed to bisphenol A.

Bereketoglu C, Arga KY, Eraslan S, Mertoglu B.

Curr Genet. 2017 May;63(2):253-274. doi: 10.1007/s00294-016-0633-z. Epub 2016 Jul 26.

PMID:
27460658
33.

Molecular signatures of ovarian diseases: Insights from network medicine perspective.

Kori M, Gov E, Arga KY.

Syst Biol Reprod Med. 2016 Aug;62(4):266-82. doi: 10.1080/19396368.2016.1197982. Epub 2016 Jun 24.

PMID:
27341345
34.

Integration of multiple biological features yields high confidence human protein interactome.

Karagoz K, Sevimoglu T, Arga KY.

J Theor Biol. 2016 Aug 21;403:85-96. doi: 10.1016/j.jtbi.2016.05.020. Epub 2016 May 16.

PMID:
27196966
35.

"Omics" of Selenium Biology: A Prospective Study of Plasma Proteome Network Before and After Selenized-Yeast Supplementation in Healthy Men.

Sinha I, Karagoz K, Fogle RL, Hollenbeak CS, Zea AH, Arga KY, Stanley AE, Hawkes WC, Sinha R.

OMICS. 2016 Apr;20(4):202-13. doi: 10.1089/omi.2015.0187. Epub 2016 Mar 30.

PMID:
27027327
36.

Proteomic and Metabolic Signatures of Esophageal Squamous Cell Carcinoma.

Karagoz K, Lehman HL, Stairs DB, Sinha R, Arga KY.

Curr Cancer Drug Targets. 2016 Feb 2. [Epub ahead of print]

PMID:
26845434
37.

Computational Systems Biology of Psoriasis: Are We Ready for the Age of Omics and Systems Biomarkers?

Sevimoglu T, Arga KY.

OMICS. 2015 Nov;19(11):669-87. doi: 10.1089/omi.2015.0096. Epub 2015 Oct 19.

38.

Tissue-Specific Molecular Biomarker Signatures of Type 2 Diabetes: An Integrative Analysis of Transcriptomics and Protein-Protein Interaction Data.

Calimlioglu B, Karagoz K, Sevimoglu T, Kilic E, Gov E, Arga KY.

OMICS. 2015 Sep;19(9):563-73. doi: 10.1089/omi.2015.0088.

PMID:
26348713
39.

Genomic analysis reveals the biotechnological and industrial potential of levan producing halophilic extremophile, Halomonas smyrnensis AAD6T.

Diken E, Ozer T, Arikan M, Emrence Z, Oner ET, Ustek D, Arga KY.

Springerplus. 2015 Aug 4;4:393. doi: 10.1186/s40064-015-1184-3. eCollection 2015.

40.

Genomic analysis of Brevibacillus thermoruber 423 reveals its biotechnological and industrial potential.

Yildiz SY, Radchenkova N, Arga KY, Kambourova M, Toksoy Oner E.

Appl Microbiol Biotechnol. 2015 Mar;99(5):2277-89. doi: 10.1007/s00253-015-6388-5. Epub 2015 Jan 21.

PMID:
25698509
41.

Triple negative breast cancer: a multi-omics network discovery strategy for candidate targets and driving pathways.

Karagoz K, Sinha R, Arga KY.

OMICS. 2015 Feb;19(2):115-30. doi: 10.1089/omi.2014.0135. Epub 2015 Jan 22.

PMID:
25611337
42.

Effective stimulating factors for microbial levan production by Halomonas smyrnensis AAD6T.

Sarilmiser HK, Ates O, Ozdemir G, Arga KY, Oner ET.

J Biosci Bioeng. 2015 Apr;119(4):455-63. doi: 10.1016/j.jbiosc.2014.09.019. Epub 2014 Nov 6.

PMID:
25454698
43.

The role of protein interaction networks in systems biomedicine.

Sevimoglu T, Arga KY.

Comput Struct Biotechnol J. 2014 Sep 3;11(18):22-7. doi: 10.1016/j.csbj.2014.08.008. eCollection 2014 Aug. Review.

44.

A system based network approach to ethanol tolerance in Saccharomyces cerevisiae.

Kasavi C, Eraslan S, Arga KY, Oner ET, Kirdar B.

BMC Syst Biol. 2014 Aug 8;8:90. doi: 10.1186/s12918-014-0090-6.

45.

The stimulatory effect of mannitol on levan biosynthesis: Lessons from metabolic systems analysis of Halomonas smyrnensis AAD6(T.).

Ates O, Arga KY, Oner ET.

Biotechnol Prog. 2013 Nov-Dec;29(6):1386-97. doi: 10.1002/btpr.1823. Epub 2013 Oct 23.

PMID:
24123998
46.

Draft Genome Sequence of Exopolysaccharide-Producing Thermophilic Bacterium Brevibacillus thermoruber Strain 423.

Yasar Yildiz S, Kambourova M, Arga KY, Toksoy Oner E.

Genome Announc. 2013 Sep 26;1(5). pii: e00774-13. doi: 10.1128/genomeA.00774-13.

47.

Assessment of high-confidence protein-protein interactome in yeast.

Karagoz K, Arga KY.

Comput Biol Chem. 2013 Aug;45:1-8. doi: 10.1016/j.compbiolchem.2013.03.002. Epub 2013 Mar 26.

PMID:
23608186
48.

Draft genome sequence of Halomonas smyrnensis AAD6T.

Sogutcu E, Emrence Z, Arikan M, Cakiris A, Abaci N, Öner ET, Ustek D, Arga KY.

J Bacteriol. 2012 Oct;194(20):5690-1.

49.

Genome-scale reconstruction of metabolic network for a halophilic extremophile, Chromohalobacter salexigens DSM 3043.

Ates O, Oner ET, Arga KY.

BMC Syst Biol. 2011 Jan 21;5:12. doi: 10.1186/1752-0509-5-12.

50.

A cross-sectional study of biotechnology awareness and teaching in European high schools.

Vanderschuren H, Heinzmann D, Faso C, Stupak M, Arga KY, Hoerzer H, Laizet Y, Leduchowska P, Silva N, Simková K.

N Biotechnol. 2010 Dec 31;27(6):822-8. doi: 10.1016/j.nbt.2010.01.338. Epub 2010 Feb 21.

PMID:
20178865

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