Hamza Umut KARAKURT, Pinar PİR

7835

Integration of transcriptomic profile of SARS-CoV-2 infected normal human bronchial epi-thelial cells with metabolic and protein-protein interaction networks

A novel coronavirus (SARS-CoV-2, formerly known as nCoV-2019) that causes an acute respiratory disease has emerged in Wuhan, China and spread globally in early 2020. On January the 30th, the World Health Organization (WHO) declared spread of this virus as an epidemic and a public health emergency. With its highly contagious characteristic and long incubation time, confinement of SARS-CoV-2 requires drastic lock-down measures to be taken and therefore early diagnosis is crucial. We analysed transcriptome of SARS-CoV-2 infected human lung epithelial cells, compared it with mock-infected cells, used network-based reporter metabolite approach and integrated the transcriptome data with protein-protein interaction network to elucidate the early cellular response. Significantly affected metabolites have the potential to be used in diagnostics while pathways of protein clusters have the potential to be used as targets for supportive or novel therapeutic approaches. Our results are in accordance with the literature on response of IL6 family of cytokines and their importance, in addition, we find that matrix metalloproteinase 2 (MMP2) and matrix metalloproteinase 9 (MMP9) with keratan sulfate synthesis pathway may play a key role in the infection. We hypothesize that MMP9 inhibitors have potential to prevent "cytokine storm" in severely affected patients.
Keywords:

SARS-CoV-2, bioinformatics, transcriptome, metabolome biological networks, data integration,

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Turkish Journal of Biology-Cover
  • ISSN: 1300-0152
  • Yayın Aralığı: Yılda 6 Sayı
  • Yayıncı: TÜBİTAK
Arşiv
Sayıdaki Diğer Makaleler

Murat TOPUZOGULLARİ, Tayfun ACAR, Pelin PELİT ARAYICI, Burcu UÇAR, Erennur UĞUREL, Emrah Şefik ABAMOR, Tülin ARASOĞLU, Dilek BALIK-TURGUT, Serap DERMAN

Ayse Banu DEMİR, Domenico BENVENUTO, Hakan ABACİOGLU, Silvia ANGELETTİ, Massimo CİCCOZZİ

Ozlem BULUT, Ihsan GURSEL

Cihan TASTAN, Bulut YURTSEVER, Gozde Sir KARAKUS, Derya Dilek KANCAGİ, Sevda DEMİR, Selen ABANUZ, Utku SEYİS, Mulazim YİLDİRİM, Recai KUZAY, Omer ELİBOL, Serap ARBAK, Merve Acikel ELMAS, Selcuk BİRDOGAN, Osman Ugur SEZERMAN, Aye Sesin KOCAGOZ, Koray YALCİN, Ercument OVALİ

Erman Salih ISTİFLİ, Arzuhan Sihoglu TEPE, Cengiz SARİKURKCU, Bektas TEPE

Israt JAHAN, Ahmet ONAY

Tauseef AHMAD, Haroon HAROON, Kuldecip DHAMA, Khan SHARUN, Fazal Mehmood KHAN, Irfan AHMED, Ruchi TİWARİ, Taha Hussien MUSA, Muhammad KHAN, D. Katterine BONİLLA-ALDANA, Alfonso J. RODRİGUEZ-MORALES, Jin HUİ

Bertan Koray BALCİOGLU, Melis Denizci ONCU, Hasan Umit OZTURK, Fatima YUCEL, Filiz KAYA, Muge SERHATLİ, Hivda Ulbegi POLAT, Saban TEKİN, Aylin Ozdemir BAHADİR

Aftab ALAM, Mohd Faizan SİDDİQUİ, Nikhat IMAM, Rafat ALİ, Md MUSHTAQUE, Romana ISHRAT

Busra AKTAS, Belma ASLIM