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Chapter and Conference Paper
Semi-supervised Learning of Sparse Linear Models in Mass Spectral Imaging
We present an approach to learn predictive models and perform variable selection by incorporating structural information from Mass Spectral Imaging (MSI) data. We explore the use of a smooth quadratic penalty ...
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Article
Venom components from Citharischius crawshayi spider (Family Theraphosidae): exploring transcriptome, venomics, and function
Despite strong efforts, knowledge about the composition of the venom of many spider species remains very limited. This work is the first report of transcriptome and venom analysis of the African spider Citharisch...
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Article
Open AccessTRIzol treatment of secretory phase endometrium allows combined proteomic and mRNA microarray analysis of the same sample in women with and without endometriosis
According to mRNA microarray, proteomics and other studies, biological abnormalities of eutopic endometrium (EM) are involved in the pathogenesis of endometriosis, but the relationship between mRNA and protein...
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Protocol
Proteomic Analysis of Laser Microdissected Ovarian Cancer Tissue with SELDI-TOF MS
The evolution of ovarian cancer will highly depend on platinum sensitivity or resistance. In an attempt to better understand this mechanism of resistance, we combined laser microdissection (LMD) of ovarian tum...
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Article
Open AccessErratum to: TRIzol treatment of secretory phase endometrium allows combined proteomic and mRNA microarray analysis of the same sample in women with and without endometriosis
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Article
Open AccessProteomic biomarkers predicting lymph node involvement in serum of cervical cancer patients. Limitations of SELDI-TOF MS
Lymph node status is not part of the staging system for cervical cancer, but provides important information for prognosis and treatment. We investigated whether lymph node status can be predicted with proteomi...
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Article
Open AccessPlatelets of mice heterozygous for neurobeachin, a candidate gene for autism spectrum disorder, display protein changes related to aberrant protein kinase A activity
Neurobeachin (NBEA) has been identified as a candidate gene for autism spectrum disorders (ASD) in several unrelated patients with alterations in the NBEA gene. The exact function of NBEA, a multidomain scaffoldi...
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Chapter
Biomarkers of Endometriosis
Endometriosis is a benign gynecological disease defined by the ectopic presence of endometrium and associated with pelvic pain and infertility. The etiology and pathogenesis remain unclear. The gold standard o...
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Article
Open AccessTissue specific analysis reveals a differential organization and regulation of both ethylene biosynthesis and E8 during climacteric ripening of tomato
Solanum lycopersicum or tomato is extensively studied with respect to the ethylene metabolism during climacteric ripening, focusing almost exclusively on fruit pericarp. In this work the ethylene biosynthesis pat...
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Chapter
Proteomic Biomarkers for Endometriosis
Endometriosis is a benign, estrogen-dependent gynecology disorder associated with pelvic pain and infertility. It is characterized by the presence of endometrial-like tissue outside the uterine cavity, mainly ...
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Article
Early differences in islets from prediabetic NOD mice: combined microarray and proteomic analysis
Type 1 diabetes is an endocrine disease where a long preclinical phase, characterised by immune cell infiltration in the islets of Langerhans, precedes elevated blood glucose levels and disease onset. Although...
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Article
Open AccessDifferential regulation of PKD isoforms in oxidative stress conditions through phosphorylation of a conserved Tyr in the P+1 loop
Protein kinases are essential molecules in life and their crucial function requires tight regulation. Many kinases are regulated via phosphorylation within their activation loop. This loop is embedded in the a...
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Article
Open AccessSustained SREBP-1-dependent lipogenesis as a key mediator of resistance to BRAF-targeted therapy
Whereas significant anti-tumor responses are observed in most BRAFV600E-mutant melanoma patients exposed to MAPK-targeting agents, resistance almost invariably develops. Here, we show that in therapy-responsive c...
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Article
Identification of PP2A/Set Binding Sites and Design of Interacting Peptides with Potential Clinical Applications
Protein phosphatase 2A (PP2A) is known to be a negative regulator of several survival and proliferating pathways that are frequently altered in cancer. In addition to chemical enzymatic inhibitors of the PP2A ...
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Article
Open AccessCytokine-induced translocation of GRP78 to the plasma membrane triggers a pro-apoptotic feedback loop in pancreatic beta cells
The 78-kDa glucose-regulated protein (GRP78) is an ubiquitously expressed endoplasmic reticulum chaperone, with a central role in maintaining protein homeostasis. Recently, an alternative role for GRP78 under ...
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Article
The Use of Antibody Arrays in the Discovery of New Plasma Biomarkers for Endometriosis
A noninvasive diagnostic test for endometriosis is needed to shorten the current diagnostic delay of 8–11 years. The goal of this study was to discover new biomarkers for endometriosis using an antibody array ...
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Article
Open AccessCeramide analog [18F]F-HPA-12 detects sphingolipid disbalance in the brain of Alzheimer’s disease transgenic mice by functioning as a metabolic probe
The metabolism of ceramides is deregulated in the brain of Alzheimer’s disease (AD) patients and is associated with apolipoprotein (APO) APOE4 and amyloid-β pathology. However, how the ceramide metabolism chan...
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Article
Open AccessSpatially aware clustering of ion images in mass spectrometry imaging data using deep learning
Computational analysis is crucial to capitalize on the wealth of spatio-molecular information generated by mass spectrometry imaging (MSI) experiments. Currently, the spatial information available in MSI data ...
