Guide for protein fold change and p-value calculation for non-experts in proteomics

JT Aguilan, K Kulej, S Sidoli - Molecular omics, 2020 - pubs.rsc.org
Proteomics studies generate tables with thousands of entries. A significant component of
being a proteomics scientist is the ability to process these tables to identify regulated …

IQuant: an automated pipeline for quantitative proteomics based upon isobaric tags

B Wen, R Zhou, Q Feng, Q Wang, J Wang, S Liu - Proteomics, 2014 - Wiley Online Library
Quantitative proteomics technology based on isobaric tags is playing an important role in
proteomic investigation. In this paper, we present an automated software, named IQuant …

[HTML][HTML] Attenuated palmitoylation of serotonin receptor 5-HT1A affects receptor function and contributes to depression-like behaviors

N Gorinski, M Bijata, S Prasad, A Wirth… - Nature …, 2019 - nature.com
The serotonergic system and in particular serotonin 1A receptor (5-HT1AR) are implicated in
major depressive disorder (MDD). Here we demonstrated that 5-HT1AR is palmitoylated in …

Assessment and improvement of statistical tools for comparative proteomics analysis of sparse data sets with few experimental replicates

V Schwammle, IR León, ON Jensen - Journal of proteome …, 2013 - ACS Publications
Large-scale quantitative analyses of biological systems are often performed with few
replicate experiments, leading to multiple nonidentical data sets due to missing values. For …

[HTML][HTML] FGF12 is a novel component of the nucleolar NOLC1/TCOF1 ribosome biogenesis complex

M Sochacka, R Karelus, L Opalinski… - Cell Communication and …, 2022 - Springer
Among the FGF proteins, the least characterized superfamily is the group of fibroblast growth
factor homologous factors (FHFs). To date, the main role of FHFs has been primarily seen in …

[HTML][HTML] N-glycosylation acts as a switch for FGFR1 trafficking between the plasma membrane and nuclear envelope

P Gregorczyk, N Porębska, D Żukowska… - Cell Communication and …, 2023 - Springer
Fibroblast growth factor receptor 1 (FGFR1) is a heavily N-glycosylated cell surface receptor
tyrosine kinase that transmits signals across the plasma membrane, in response to fibroblast …

[HTML][HTML] Sugar Starvation Disrupts Lipid Breakdown by Inducing Autophagy in Embryonic Axes of Lupin (Lupinus spp.) Germinating Seeds

S Borek, S Stefaniak, K Nuc, Ł Wojtyla… - International Journal of …, 2023 - mdpi.com
Under nutrient deficiency or starvation conditions, the mobilization of storage compounds
during seed germination is enhanced to primarily supply respiratory substrates and hence …

[HTML][HTML] Proteome Profiling of the Dystrophic mdx Mice Diaphragm

O Mucha, M Myszka, P Podkalicka, B Świderska… - Biomolecules, 2023 - mdpi.com
Mdx mice with a spontaneous mutation in exon 23 of the Dmd gene represent the most
common model to investigate the pathophysiology of Duchenne muscular dystrophy (DMD) …

[HTML][HTML] Molecular mechanism for cellular response to β-escin and its therapeutic implications

D Domanski, O Zegrocka-Stendel, A Perzanowska… - PloS one, 2016 - journals.plos.org
β-escin is a mixture of triterpene saponins isolated from the horse chestnut seeds (Aesculus
hippocastanum L.). The anti-edematous, anti-inflammatory and venotonic properties of β …

[HTML][HTML] Protein disulfide isomerase A1 regulates fenestration dynamics in primary mouse liver sinusoidal endothelial cells (LSECs)

I Czyzynska-Cichon, M Giergiel, G Kwiatkowski… - Redox Biology, 2024 - Elsevier
Protein disulfide isomerases (PDIs) are involved in many intracellular and extracellular
processes, including cell adhesion and cytoskeletal reorganisation, but their contribution to …