Comparative proteogenomic characterization of glioblastoma [PDF]
CNS Oncology, 2019 Aim: Glioblastoma multiforme (GBM) carries a dismal prognosis. Integrated proteogenomic analysis was performed to understand GBM pathophysiology. Patients & methods: 17 patient samples were analyzed for driver mutations, oncogenes, major pathway alterations and molecular changes at gene and protein level.
Samia Asif +4 more
openaire +3 more sources
Proteogenomics in aid of host-pathogen interaction studies : a bacterial perspective [PDF]
, 2017 By providing useful tools to study host-pathogen interactions, next-generation omics has recently enabled the study of gene expression changes in both pathogen and infected host simultaneously.
Fels, Ursula +2 more
core +3 more sources
Microscaled proteogenomic methods for precision oncology [PDF]
Nature Communications, 2020 Abstract Cancer proteogenomics promises new insights into cancer biology and treatment efficacy by integrating genomics, transcriptomics and protein profiling including modifications by mass spectrometry (MS). A critical limitation is sample input requirements that exceed many sources of clinically important material. Here we report a
Shankha Satpathy +32 more
openaire +3 more sources
Ribosome signatures aid bacterial translation initiation site identification [PDF]
, 2017 Background: While methods for annotation of genes are increasingly reliable, the exact identification of translation initiation sites remains a challenging problem.
Chyżyńska, Katarzyna +5 more
core +2 more sources
Evaluating the effect of database inflation in proteogenomic search on sensitive and reliable peptide identification [PDF]
, 2016 Comparison of novel peptides identified from real proteogenomic databases.
Eunok Paek +5 more
core +2 more sources
Proteogenomics decodes the evolution of human ipsilateral breast cancer
Communications Biology, 2023 Ipsilateral breast tumor recurrence (IBTR) is a clinically important event, where an isolated in-breast recurrence is a potentially curable event but associated with an increased risk of distant metastasis and breast cancer death.
Tommaso de Marchi +14 more
semanticscholar +1 more source
Exploring the potential of public proteomics data [PDF]
, 2016 In a global effort for scientific transparency, it has become feasible and good practice to share experimental data supporting novel findings. Consequently, the amount of publicly available MS-based proteomics data has grown substantially in recent years.
Barsnes, Harald +7 more
core +1 more source
Development and optimization of a miniaturized western blot-based screening platform to identify regulators of post-translational modifications [PDF]
, 2019 Post-translational modifications (PTMs) are fundamental traits of protein functionality and their study has been addressed using several approaches over the past years.
Gottifredi, Vanesa +2 more
core +1 more source
Proteogenomic links to human metabolic diseases
Nature Metabolism, 2023 Studying the plasma proteome as the intermediate layer between the genome and the phenome has the potential to identify new disease processes. Here, we conducted a cis-focused proteogenomic analysis of 2,923 plasma proteins measured in 1,180 individuals using antibody-based assays. We (1) identify 256 unreported protein quantitative trait loci (pQTL); (
Mine Koprulu +7 more
openaire +2 more sources
Community proteogenomics reveals the systemic impact of phosphorus availability on microbial functions in tropical soil. [PDF]
, 2018 Phosphorus is a scarce nutrient in many tropical ecosystems, yet how soil microbial communities cope with growth-limiting phosphorus deficiency at the gene and protein levels remains unknown.
Guo, Xuan +11 more
core +1 more source