Proteome data of neuroblastoma cells overexpressing Neuroglobin

Michele Costanzo; Marianna Caterino; Illari Salvatori; Valeria Manganelli; Alberto Ferri; Roberta Misasi; Margherita Ruoppolo

doi:10.1016/j.dib.2022.107843

Proteome data of neuroblastoma cells overexpressing Neuroglobin

Data Brief. 2022 Jan 20:41:107843. doi: 10.1016/j.dib.2022.107843. eCollection 2022 Apr.

Authors

Michele Costanzo^{1

2}, Marianna Caterino^{1

2}, Illari Salvatori³, Valeria Manganelli⁴, Alberto Ferri³, Roberta Misasi⁴, Margherita Ruoppolo^{1

2}

Affiliations

¹ Department of Molecular Medicine and Medical Biotechnology, University of Naples Federico II, Naples 80131, Italy.
² CEINGE-Biotecnologie Avanzate s.c.ar.l., Naples 80145, Italy.
³ Fondazione Santa Lucia IRCCS, c/o CERC, Rome 00143, Italy.
⁴ Department of Experimental Medicine, "Sapienza" University of Rome, Rome 00161, Italy.

Abstract

In this article, we present data on the proteome of human neuroblastoma cells stably overexpressing Neuroglobin (NGB). The neuroprotective role of NGB is clearly established, nevertheless the related mechanistic processes, which are dependent on NGB overexpression, are not known. To address this question, we performed shotgun label-free quantification (LFQ) proteomics using an SH-SY5Y cell model of neuroblastoma that overexpresses an NGB-FLAG construct, and wild type cells transfected with an empty vector as control (CTRL). The proteomes from six biological samples per condition were digested using the S-Trap sample preparation followed by LC-MS/MS analysis with a LTQ-Orbitrap XL mass spectrometer. The quantitative analysis was performed using the LFQ algorithm of MaxQuant, leading to 1654 correctly quantified proteins over 2580 identified proteins. Finally, the statistic comparison of the two analyzed groups within Perseus platform identified 178 differential proteins (107 up- and 71 down-regulated). In addition, multivariate statistical analysis was carried out using MetaboAnalyst 5.0 software. MS proteomics data are available via ProteomeXchange with the dataset identifier PXD029012.

Keywords: LC-MS/MS; Label-free quantification; MaxQuant; MetaboAnalyst; Neuroglobin; Perseus; Proteomics; S-Trap.