Dataset of a comparative proteomics experiment in a methylmalonyl-CoA mutase knockout HEK 293 cell model.
Dataset of a comparative proteomics experiment in a methylmalonyl-CoA mutase knockout HEK 293 cell model.
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DOI：
10.1016/j.dib.2020.106453
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发表时间：
2020-12
期刊：
影响因子：
1.2
通讯作者：
Ruoppolo M
中科院分区：
文献类型：
--
作者：
Costanzo M;Caterino M;Cevenini A;Jung V;Chhuon C;Lipecka J;Fedele R;Guerrera IC;Ruoppolo M
甲基丙二酸血症是一种罕见的先天性代谢缺陷，具有严重的临床并发症和不良预后。本数据文章涉及对 HEK 293 细胞系进行的蛋白质组学研究，该细胞系已使用 CRISPR-CAS9 系统进行基因改造，以敲除甲基丙二酸单酰辅酶 A 变位酶 (MUT-KO)。因此，生成的甲基丙二酸血症细胞模型用于与进行无标记定量（LFQ）实验的 HEK 293 野生型细胞进行蛋白质组比较。在对样品进行蛋白质组分析之前，对蛋白质提取物进行了 FASP 和 S-Trap 消化方法的比较。采用四个生物重复进行 LC-MS/MS 分析，每个重复进行技术三次。 MaxQuant和Perseus平台分别用于进行蛋白质组的LFQ并进行统计分析。在全球范围内，鉴定出 4341 个蛋白质，其中 243 个蛋白质受到差异调节，其中 150 个蛋白质在 MUT-KO 条件下下调，93 个蛋白质上调。 MS 蛋白质组学数据已存入 ProteomeXchange Consortium，数据集标识符为 PXD017977。该数据集中提供的信息为这种罕见代谢紊乱中改变的细胞机制提供了新的线索，强调了在细胞结构和体系结构组织以及对压力的反应中起作用的蛋白质的定量不平衡。本文可作为待验证的蛋白质作用物的新来源，以及识别临床相关治疗靶点的起点。
Methylmalonic acidemia is a rare inborn error of metabolism with severe clinical complications and poor outcome. The present data article is related to a proteomic investigation conducted on a HEK 293 cell line which has been genetically modified using CRISPR-CAS9 system to knockout the methylmalonyl-CoA mutase enzyme (MUT-KO). Thus, the generated cell model for methylmalonic acidemia was used for a proteomic comparison with respect to HEK 293 wild type cells performing a label-free quantification (LFQ) experiment. A comparison between FASP and S-Trap digestion methods was performed on protein extracts before to proceed with the proteomic analysis of the samples. Four biological replicates were employed for LC-MS/MS analysis and each was run in technical triplicates. MaxQuant and Perseus platforms were used to perform the LFQ of the proteomes and carry out statistical analysis, respectively. Globally, 4341 proteins were identified, and 243 as differentially regulated, of which 150 down-regulated and 93 up-regulated in the MUT-KO condition. MS proteomics data have been deposited to the ProteomeXchange Consortium with the dataset identifier PXD017977. The information provided in this dataset shed new light on the cellular mechanisms altered in this rare metabolic disorder, highlighting quantitative unbalances in proteins acting in cell structure and architecture organization and response to the stress. This article can be used as a new source of protein actors to be validated and a starting point for the identification of clinically relevant therapeutic targets.
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影响因子：
5.6
作者：
Costanzo, Michele;Caterino, Marianna;Ruoppolo, Margherita
通讯作者：
Ruoppolo, Margherita
影响因子：
5.6
作者：
Costanzo M;Cevenini A;Marchese E;Imperlini E;Raia M;Del Vecchio L;Caterino M;Ruoppolo M
通讯作者：
Ruoppolo M
影响因子：
5.5
作者：
De Pasquale, Valeria;Costanzo, Michele;Caterino, Marianna
通讯作者：
Caterino, Marianna
影响因子：
3
作者：
Heberle H;Meirelles GV;da Silva FR;Telles GP;Minghim R
通讯作者：
Minghim R
影响因子：
4.4
作者：
Ludwig, Katelyn R.;Schroll, Monica M.;Hummon, Amanda B.
通讯作者：
Hummon, Amanda B.