keyword
MENU ▼
Read by QxMD icon Read
search

rppa

keyword
https://www.readbyqxmd.com/read/29892502/beef-tenderness-and-intramuscular-fat-proteomic-biomarkers-muscle-type-effect
#1
Brigitte Picard, Mohammed Gagaoua, Marwa Al-Jammas, Leanne De Koning, Albéric Valais, Muriel Bonnet
Tenderness and intramuscular fat content are key attributes for beef sensory qualities. Recently some proteomic analysis revealed several proteins which are considered as good biomarkers of these quality traits. This study focuses on the analysis of 20 of these proteins representative of several biological functions: muscle structure and ultrastructure, muscle energetic metabolism, cellular stress and apoptosis. The relative abundance of the proteins was measured by Reverse Phase Protein Array (RPPA) in five muscles known to have different tenderness and intramuscular lipid contents: Longissimus thoracis (LT), Semimembranosus (SM), Rectus abdominis (RA), Triceps brachii (TB) and Semitendinosus (ST)...
2018: PeerJ
https://www.readbyqxmd.com/read/29872754/induction-of-nerve-growth-factor-by-phorbol-12-myristate-13-acetate-is-dependent-upon-the-mitogen-activated-protein-kinase-pathway
#2
Justin B Davis, Valerie Calvert, Steven Roberts, Sabrina Bracero, Emanuel Petricoin, Robin Couch
Several small molecules have been identified that induce glial cells to synthesize and secrete nerve growth factor (NGF), a critical neurotrophin that supports neuronal growth and survival, and as such show promise in the development of drugs for the chemoprevention of Alzheimer's disease. To map the signal transduction cascade leading to NGF synthesis and secretion, cultured human glial cells were stimulated by phorbol 12-myristate 13-acetate (PMA), an agonist of Protein Kinase C. Changes in intracellular protein phosphorylation states were evaluated by reverse phase protein microarrays (RPPA), selectively screening over 130 protein endpoints...
May 2018: Heliyon
https://www.readbyqxmd.com/read/29716986/credentialing-individual-samples-for-proteogenomic-analysis
#3
Wei Zhao, Jun Li, Rehan Akbani, Han Liang, Gordon B Mills
An integrated analysis of DNA, RNA and protein, so called proteogenomic studies, has the potential to greatly increase our understanding of both normal physiology and disease development. However, such studies are challenged by a lack of a systematic approach to credential individual samples resulting in the introduction of noise into the system that limits the ability to identify important biological signals. Indeed, a recent proteogenomic CPTAC study identified 26% of samples as unsatisfactory, resulting in a marked increase in cost and loss of information content...
May 1, 2018: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/29669821/recognition-of-recurrent-protein-expression-patterns-in-pediatric-acute-myeloid-leukemia-identified-new-therapeutic-targets
#4
Fieke W Hoff, Chenyue W Hu, Yihua Qiu, Andrew Ligeralde, Suk-Young Yoo, Hasan Mahmud, Eveline Sjm De Bont, Amina A Qutub, Terzah M Horton, Steven M Kornblau
Heterogeneity in the genetic landscape of pediatric acute myeloid leukemia (AML) makes personalized medicine challenging. As genetic events are mediated by the expression and function of proteins, recognition of recurrent protein patterns could enable classification of pediatric AML patients and could reveal crucial protein dependencies. This could help to rationally select combinations of therapeutic targets. To determine if protein expression levels could be clustered into functionally relevant groups, custom Reverse Phase Protein Arrays (RPPA) were performed on pediatric AML (n=95) and CD34+ normal bone marrow (n=10) clinical specimens using 194 validated antibodies...
April 18, 2018: Molecular Cancer Research: MCR
https://www.readbyqxmd.com/read/29655803/role-of-msc-derived-galectin-3-in-the-aml-microenvironment
#5
Peter P Ruvolo, Vivian R Ruvolo, Jared K Burks, YiHua Qiu, Rui-Yu Wang, Elizabeth J Shpall, Leonardo Mirandola, Numsen Hail, Zhihong Zeng, Teresa McQueen, Naval Daver, Sean M Post, Maurizio Chiriva-Internati, Steven M Kornblau, Michael Andreeff
In acute myeloid leukemia (AML), high Galectin 3 (LGALS3) expression is associated with poor prognosis. The role of LGALS3 derived from mesenchymal stromal cells (MSC) in the AML microenvironment is unclear; however, we have recently found high LGALS3 expression in MSC derived from AML patients is associated with relapse. In this study, we used reverse phase protein analysis (RPPA) to correlate LGALS3 expression in AML MSC with 119 other proteins including variants of these proteins such as phosphorylated forms or cleaved forms to identify biologically relevant pathways...
July 2018: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/29623577/use-of-dual-mtor-inhibitor-mln0128-against-everolimus-resistant-breast-cancer
#6
Karineh Petrossian, Duc Nguyen, Chiao Lo, Noriko Kanaya, George Somlo, Yvonne Xiaoyong Cui, Chiun-Sheng Huang, Shiuan Chen
PURPOSE: HR+/HER2- aromatase inhibitor-resistant metastatic breast cancer can be treated with everolimus and a second AI until the cancer recurs. Targeting these everolimus-resistant patients with the latest standard of care, CDK4/6 inhibitors, has not been clearly addressed. Understanding the signaling transduction pathways, which everolimus resistance activates, will elucidate the mechanisms and offer treatment strategies of everolimus resistance. METHODS: To mimic the clinical setting, letrozole-resistant cells were used to generate an everolimus-resistant model (RAD-R)...
April 5, 2018: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/29581842/integrative-proteomic-and-transcriptomic-analysis-provides-evidence-for-trkb-ntrk2-as-a-therapeutic-target-in-combination-with-tyrosine-kinase-inhibitors-for-non-small-cell-lung-cancer
#7
Daniel Richard Gomez, Lauren Averett Byers, Monique Nilsson, Lixia Diao, Jing Wang, Lerong Li, Pan Tong, Mia Hofstad, Babita Saigal, Ignacio Wistuba, Neda Kalhor, Stephen Swisher, Youhong Fan, Waun Ki Hong, Milind Suraokar, Carmen Behrens, Cesar Moran, John Victor Heymach
While several molecular targets have been identified for adenocarcinoma (ACA) of the lung, similar drivers with squamous cell carcinoma (SCC) are sparse. We compared signaling pathways and potential therapeutic targets in lung SCC and ACA tumors using reverse phase proteomic arrays (RPPA) from two independent cohorts of resected early stage NSCLC patients: a testing set using an MDACC cohort (N=140) and a validation set using the Cancer Genome Atlas (TCGA) cohorts. We identified multiple potentially targetable proteins upregulated in SCC, including NRF2, Keap1, PARP, TrkB, and Chk2...
March 6, 2018: Oncotarget
https://www.readbyqxmd.com/read/29572225/therapeutic-targeting-of-sunitinib-induced-ar-phosphorylation-in-renal-cell-carcinoma
#8
Remi Adelaiye-Ogala, Nur P Damayanti, Ashley R Orillion, Sreevani Arisa, Sreenivasulu Chintala, Mark A Titus, Chinghai Kao, Roberto Pili
Androgen receptor (AR) plays a crucial role in the development and progression of prostate cancer. AR expression has also been reported in other solid tumors, including renal cell carcinoma (RCC), but its biological role here remains unclear. Through integrative analysis of a reverse phase protein array (RPPA), we discovered increased expression of AR in an RCC patient-derived xenograft model of acquired resistance to the receptor tyrosine kinase inhibitor (RTKi) sunitinib. AR expression was increased in RCC cell lines with either acquired or intrinsic sunitinib resistance in vitro...
March 23, 2018: Cancer Research
https://www.readbyqxmd.com/read/29556516/high-dimensional-regression-analysis-links-magnetic-resonance-imaging-features-and-protein-expression-and-signaling-pathway-alterations-in-breast-invasive-carcinoma
#9
Michael Lehrer, Anindya Bhadra, Sathvik Aithala, Visweswaran Ravikumar, Youyun Zheng, Basak Dogan, Emerlinda Bonaccio, Elizabeth S Burnside, Elizabeth Morris, Elizabeth Sutton, Gary J Whitman, Jose Net, Kathy Brandt, Marie Ganott, Margarita Zuley, Arvind Rao
Background: Imaging features derived from MRI scans can be used for not only breast cancer detection and measuring disease extent, but can also determine gene expression and patient outcomes. The relationships between imaging features, gene/protein expression, and response to therapy hold potential to guide personalized medicine. We aim to characterize the relationship between radiologist-annotated tumor phenotypic features (based on MRI) and the underlying biological processes (based on proteomic profiling) in the tumor...
January 2018: Oncoscience
https://www.readbyqxmd.com/read/29505696/histone-modification-patterns-using-rppa-based-profiling-predict-outcome-in-acute-myeloid-leukemia-patients
#10
Anneke D van Dijk, Chenyue W Hu, Eveline S J M de Bont, YiHua Qiu, Fieke W Hoff, Suk Young Yoo, Kevin R Coombes, Amina A Qutub, Steven M Kornblau
Posttranslational histone tail modifications are known to play a role in leukemogenesis and are therapeutic targets. A global analysis of the level and patterns of expression of multiple histone-modifying proteins (HMP) in acute myeloid leukemia (AML) and the effect of different patterns of expression on outcome and prognosis has not been investigated in AML patients. Here we analyzed 20 HMP by reverse phase protein array (RPPA) in a cohort of 205 newly diagnosed AML patients. Protein levels were correlated with patient and disease characteristics, including survival and mutational state...
April 2018: Proteomics
https://www.readbyqxmd.com/read/29490339/enteral-arg-gln-dipeptide-administration-increases-retinal-docosahexaenoic-acid-and-neuroprotectin-d1-in-a-murine-model-of-retinopathy-of-prematurity
#11
Lynn Calvin Shaw, Sergio Li Calzi, Nan Li, Leni Moldovan, Nilanjana Sengupta-Caballero, Judith Lindsey Quigley, Mircea Ivan, Bokkyoo Jun, Nicolas G Bazan, Michael Edwin Boulton, Julia Busik, Josef Neu, Maria B Grant
Purpose: Low levels of the long chain polyunsaturated fatty acid (LCPUFA) docosahexaenoic acid (DHA) have been implicated in retinopathy of prematurity (ROP). However, oral DHA suffers from poor palatability and is associated with increased bleeding in premature infants. We asked whether oral administration of the neutraceutical arginine-glutamine (Arg-Glu) could increase retinal DHA and improve outcomes in a mouse model of oxygen-induced retinopathy (OIR). Methods: Postnatal day 7 (P7) pups were maintained at 75% oxygen for 5 days and then returned to room air on P12...
February 1, 2018: Investigative Ophthalmology & Visual Science
https://www.readbyqxmd.com/read/29478376/rppaware-a-software-suite-to-preprocess-analyze-and-visualize-reverse-phase-protein-array-data
#12
A Ranjitha Dhanasekaran, Katheleen J Gardiner
Reverse Phase Protein Arrays (RPPA) is a high-throughput technology used to profile levels of protein expression. Handling the large datasets generated by RPPA can be facilitated by appropriate software tools. Here, we describe RPPAware, a free and intuitive software suite that was developed specifically for analysis and visualization of RPPA data. RPPAware is a portable tool that requires no installation and was built using Java. Many modules of the tool invoke R to utilize the statistical features. To demonstrate the utility of RPPAware, data generated from screening brain regions of a mouse model of Down syndrome with 62 antibodies were used as a case study...
January 15, 2018: Journal of Bioinformatics and Computational Biology
https://www.readbyqxmd.com/read/29426295/preclinical-evaluation-and-reverse-phase-protein-array-based-profiling-of-pi3k-and-mek-inhibitors-in-endometrial-carcinoma-in-vitro
#13
Ozlem Aslan, Mattia Cremona, Clare Morgan, Lydia W Cheung, Gordon B Mills, Bryan T Hennessy
BACKGROUND: The phosphoinositide-3-kinase (PI3K) pathway is the most commonly activated pathway in cancers due to mutations at multiple nodes and loss of PTEN. Furthermore, in endometrial cancer (EC), PI3K and RAS/RAF/MEK/MAPK (RAS/MAPK herein) pathway mutations frequently co-exist. We examined the role of PI3K and RAS/MAPK pathway mutations in determining responsiveness to therapies targeted to these pathways in vitro in EC. METHODS: 13 EC cell lines were profiled for their PI3K pathway and KRAS mutational and PTEN protein status and treated with one MEK- and two PI3K- targeted inhibitors alone and in combination...
February 9, 2018: BMC Cancer
https://www.readbyqxmd.com/read/29412918/reverse-phase-protein-arrays-for-the-identification-validation-of-biomarkers-of-beef-texture-and-their-use-for-early-classification-of-carcasses
#14
Mohammed Gagaoua, Muriel Bonnet, Marie-Pierre Ellies-Oury, Leanne De Koning, Brigitte Picard
The validation of biomarkers and tools for the prediction of beef texture remains a challenging task. In this study, reverse phase protein arrays (RPPA) quantified 29 protein biomarkers in the m. Longissimus thoracis of Charolais cattle sampled early post-mortem. Myosin heavy chain 1 (MHC1, slow-oxidative fibers) and Retinal dehydrogenase 1 (ALDH1A1, oxidative enzyme) discriminated between tender and juicy vs. tough meat with residues classes and are validated as prime biomarkers of beef texture. Several proteins belonging to energy metabolism, heat shock and oxidative stress, cytoskeletal, cell signaling and apoptosis were related with tenderness...
June 1, 2018: Food Chemistry
https://www.readbyqxmd.com/read/29408900/phosphoproteomic-analysis-reveals-smad-protein-family-activation-following-rift-valley-fever-virus-infection
#15
Cynthia de la Fuente, Chelsea Pinkham, Deemah Dabbagh, Brett Beitzel, Aura Garrison, Gustavo Palacios, Kimberley Alex Hodge, Emanuel F Petricoin, Connie Schmaljohn, Catherine E Campbell, Aarthi Narayanan, Kylene Kehn-Hall
Rift Valley fever virus (RVFV) infects both ruminants and humans leading to a wide variance of pathologies dependent on host background and age. Utilizing a targeted reverse phase protein array (RPPA) to define changes in signaling cascades after in vitro infection of human cells with virulent and attenuated RVFV strains, we observed high phosphorylation of Smad transcription factors. This evolutionarily conserved family is phosphorylated by and transduces the activation of TGF-β superfamily receptors. Moreover, we observed that phosphorylation of Smad proteins required active RVFV replication and loss of NSs impaired this activation, further corroborating the RPPA results...
2018: PloS One
https://www.readbyqxmd.com/read/29408328/ribociclib-a-cdk4-cdk6-kinase-inhibitor-enhances-glucocorticoid-sensitivity-in-b-acute-lymphoblastic-leukemia-b-all
#16
Roberta Bortolozzi, Elena Mattiuzzo, Luca Trentin, Benedetta Accordi, Giuseppe Basso, Giampietro Viola
Dysregulation of the cyclin D1-CDK4/CDK6 complex is frequently observed in almost all human cancer and contributes to aberrant cell proliferation and consequent tumorigenesis. Although many reports described the importance of CDK4/CDK6 in different set of human tumors, only few studies have been performed on leukemia. By gene expression analysis performed in a cohort of childhood patients affected by B-acute lymphoblastic leukemia (B-ALL) we found that both CDK4 and CDK6 are highly expressed. Moreover, reverse phase protein array (RPPA) analysis showed that cyclin D1 levels are higher in patients undergoing relapse...
February 3, 2018: Biochemical Pharmacology
https://www.readbyqxmd.com/read/29291005/proteomic-profiling-of-endometrioid-endometrial-cancer-reveals-differential-expression-of-hormone-receptors-and-mapk-signaling-proteins-in-obese-versus-non-obese-patients
#17
Karen Klepsland Mauland, Zhenlin Ju, Ingvild Løberg Tangen, Anna Berg, Karl-Henning Kalland, Anne Margrete Øyan, Line Bjørge, Shannon N Westin, Camilla Krakstad, Jone Trovik, Gordon B Mills, Erling A Hoivik, Henrica Maria Johanna Werner
Endometrial cancer development is strongly linked to obesity, but knowledge regarding the influence of excess weight on endometrial tumor signaling pathways remains scarce. We therefore analyzed reverse phase protein array (RPPA) data for obesity-related protein expression patterns, using one training (n=272) and two test cohorts (n=68; n=178) of well-annotated samples from women treated for endometrioid endometrial cancer. Gene expression profiling and immunohistochemistry were used for cross-platform validation...
December 5, 2017: Oncotarget
https://www.readbyqxmd.com/read/29186355/global-proteomics-profiling-improves-drug-sensitivity-prediction-results-from-a-multi-omics-pan-cancer-modeling-approach
#18
Mehreen Ali, Suleiman A Khan, Krister Wennerberg, Tero Aittokallio
Motivation: Proteomics profiling is increasingly being used for molecular stratification of cancer patients and cell-line panels. However, systematic assessment of the predictive power of large-scale proteomic technologies across various drug classes and cancer types is currently lacking. To that end, we carried out the first pan-cancer, multi-omics comparative analysis of the relative performance of two proteomic technologies, targeted reverse phase protein array (RPPA) and global mass spectrometry (MS), in terms of their accuracy for predicting the sensitivity of cancer cells to both cytotoxic chemotherapeutics and molecularly targeted anticancer compounds...
April 15, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29167824/protein-activation-mapping-of-human-sun-protected-epidermis-after-an-acute-dose-of-erythemic-solar-simulated-light
#19
Janine G Einspahr, Clara Curiel-Lewandrowski, Valerie S Calvert, Steven P Stratton, David S Alberts, James Warneke, Chengcheng Hu, Kathylynn Saboda, Elisabeth L Wagener, Sally Dickinson, Zigang Dong, Ann M Bode, Emanuel F PetricoinIII
Ultraviolet radiation is an important etiologic factor in skin cancer and a better understanding of how solar stimulated light (SSL) affects signal transduction pathways in human skin which is needed in further understanding activated networks that could be targeted for skin cancer prevention. We utilized Reverse Phase Protein Microarray Analysis (RPPA), a powerful technology that allows for broad-scale and quantitative measurement of the activation/phosphorylation state of hundreds of key signaling proteins and protein pathways in sun-protected skin after an acute dose of two minimal erythema dose (MED) of SSL...
2017: NPJ Precision Oncology
https://www.readbyqxmd.com/read/29156708/a-preclinical-evaluation-of-the-mek-inhibitor-refametinib-in-her2-positive-breast-cancer-cell-lines-including-those-with-acquired-resistance-to-trastuzumab-or-lapatinib
#20
John O'Shea, Mattia Cremona, Clare Morgan, Malgorzata Milewska, Frankie Holmes, Virginia Espina, Lance Liotta, Joyce O'Shaughnessy, Sinead Toomey, Stephen F Madden, Aoife Carr, Naomi Elster, Bryan T Hennessy, Alex J Eustace
Purpose: The MEK/MAPK pathway is commonly activated in HER2-positive breast cancer, but little investigation of targeting this pathway has been undertaken. Here we present the results of an in vitro preclinical evaluation of refametinib, an allosteric MEK1/2 inhibitor, in HER2-positive breast cancer cell lines including models of acquired resistance to trastuzumab or lapatinib. Methods: A panel of HER2-positive breast cancer cells were profiled for mutational status and also for anti-proliferative response to refametinib alone and in combination with the PI3K inhibitor (PI3Ki) copanlisib and the HER2-targeted therapies trastuzumab and lapatinib...
October 17, 2017: Oncotarget
keyword
keyword
78752
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"