A5056430594- Gene expression and cancer classification
- Advanced Proteomics Techniques and Applications
- Bioinformatics and Genomic Networks
- Molecular Biology Techniques and Applications
- Growth Hormone and Insulin-like Growth Factors
- Machine Learning in Bioinformatics
- Cancer Cells and Metastasis
- Traumatic Brain Injury Research
- Metabolomics and Mass Spectrometry Studies
- Cancer Genomics and Diagnostics
- Traumatic Brain Injury and Neurovascular Disturbances
- Lung Cancer Research Studies
- Advanced Biosensing Techniques and Applications
- Functional Brain Connectivity Studies
- High Altitude and Hypoxia
- Mass Spectrometry Techniques and Applications
- Health, Environment, Cognitive Aging
- AI in cancer detection
- Genomics and Phylogenetic Studies
- Metastasis and carcinoma case studies
- Testicular diseases and treatments
- Neurological disorders and treatments
- Computational Drug Discovery Methods
- vaccines and immunoinformatics approaches
- Parkinson's Disease Mechanisms and Treatments
Cohen Veterans Bioscience
2018-2024
Broad Institute
2021
PatientsLikeMe (United States)
2018
Thomson Reuters (United States)
2013-2015
Thomson Reuters (United Kingdom)
2014-2015
Almac (United Kingdom)
2013
University of Manchester
2007-2013
Cancer Research UK Manchester Institute
2007-2013
Manchester Academic Health Science Centre
2013
National Health Service
2011-2012
Lung cancer is the leading cause of cancer-related death worldwide. Non-small-cell lung (NSCLC) lacks validated biomarkers to predict treatment response. This study investigated whether circulating tumor cells (CTCs) are detectable in patients with NSCLC and what their ability might be provide prognostic information and/or early indication patient response conventional therapy.In this single-center prospective study, blood samples for CTC analysis were obtained from 101 previously untreated,...
Purpose Circulating tumor cells (CTCs) may have utility as surrogate biomarkers and “virtual” biopsies. We report the clinical significance molecular characteristics of CTCs CTC clusters, termed circulating microemboli (CTM), detected in patients with small-cell lung cancer (SCLC) undergoing standard treatment. Patients Methods Serial blood samples from 97 receiving chemotherapy were analyzed using EpCam-based immunomagnetic detection a filtration-based technique. Proliferation status (Ki67)...
The rat has been used extensively as a model for evaluating chemical toxicities and understanding drug mechanisms. However, its transcriptome across multiple organs, or developmental stages, not yet reported. Here we show, part of the SEQC consortium efforts, comprehensive transcriptomic BodyMap created by performing RNA-Seq on 320 samples from 11 organs both sexes juvenile, adolescent, adult aged Fischer 344 rats. We catalogue expression profiles 40,064 genes, 65,167 transcripts, 31,909...
Gene expression profiling is being widely applied in cancer research to identify biomarkers for clinical endpoint prediction. Since RNA-seq provides a powerful tool transcriptome-based applications beyond the limitations of microarrays, we sought systematically evaluate performance RNA-seq-based and microarray-based classifiers this MAQC-III/SEQC study prediction using neuroblastoma as model.We generate gene profiles from 498 primary neuroblastomas both 44 k microarrays. Characterization...
The discovery of novel drug targets is a significant challenge in development. Although the human genome comprises approximately 30,000 genes, proteins encoded by fewer than 400 are used as treatment diseases. Therefore, extremely valuable source for first class drugs. On other hand, many currently known functionally pleiotropic and involved multiple pathologies. Several them exploited treating diseases, which highlights need methods to reliably reposition new indications. Network-based have...
Applications of genomic and proteomic technologies have seen a major increase, resulting in an explosion the amount highly dimensional complex data being generated. Subsequently this has increased effort by bioinformatics community to develop novel computational approaches that allow for meaningful information be extracted. This must biological relevance thus correlate disease phenotypes interest. Artificial neural networks are form machine learning from field artificial intelligence with...
Abstract Background Gene expression microarray has been the primary biomarker platform ubiquitously applied in biomedical research, resulting enormous data, predictive models, and biomarkers accrued. Recently, RNA-seq looked likely to replace microarrays, but there will be a period where both technologies co-exist. This raises two important questions: Can microarray-based models directly data? future RNA-seq-based data leverage past investment? Results We systematically evaluated...
Currently known serum biomarkers do not predict clinical outcome in melanoma. S100-beta is widely established as a reliable prognostic indicator patients with advanced metastatic disease but of limited predictive value tumor-free patients. This study was aimed to determine whether molecular profiling the proteome could discriminate between early- and late-stage melanoma progression.Two hundred five samples from 101 early-stage (American Joint Committee on Cancer [AJCC] stage I) 104 (AJCC IV)...
Circulating full-length and caspase-cleaved cytokeratin 18 (CK18) are considered biomarkers of chemotherapy-induced cell death measured using a combination the M30 M65 ELISAs. measures CK18 produced during apoptosis levels both intact CK18, latter which is released from cells undergoing necrosis. Previous studies have highlighted their potential as prognostic, predictive, pharmacological tools in treatment cancer. Disseminated testicular germ cancer (TC) paradigm for chemosensitive solid...
A mass spectrometry-based plasma biomarker discovery workflow was developed to facilitate discovery. Plasma from either healthy volunteers or patients with pancreatic cancer 8-plex iTRAQ labeled, fractionated by 2-dimensional reversed phase chromatography and subjected MALDI ToF/ToF spectrometry. Data were processed using a q-value based statistical approach maximize protein quantification identification. Technical (between duplicate samples) biological variance within individuals)...
Embryonic stem (ES) cells can differentiate in vitro to produce the endothelial and hematopoietic precursor, hemangioblasts, which are derived from mesoderm germ layer. Differentiation of BryGFP/+ ES cell hemangioblasts be followed by expression Flk1 genes. Proteomic transcriptomic changes during this differentiation process were analyzed identify mechanisms for phenotypic change early differentiation. Three populations differentiating BryGFP obtained flow cytometric sorting, GFP−Flk1−...
The financial burden of caring for 5.2 million people with Alzheimer's disease (AD) is $214 billion. This number will rise to $1.2 trillion by 2050 if the projected tripling 16 cases does occur. Importantly, these estimates are likely be conservative, given numerous causes dementia, underscoring imperative treatment. Furthermore, numbers do not account emotional costs patients and their families. Unfortunately, date, there no disease-modifying medications. presumption failed clinical trial...
Robust computer algorithms are required to interpret the vast amounts of proteomic data currently being produced and generate generalized models which applicable 'real world' scenarios. One such scenario is classification bacterial species. These vary immensely, some remaining remarkably stable whereas others extremely labile showing rapid mutation change. Such variation makes clinical diagnosis difficult pathogens may be easily misidentified.We applied artificial neural networks (Neuroshell...
Many individuals will be exposed to some form of traumatic stress in their lifetime which, turn, increases the likelihood developing stress-related disorders such as post-traumatic disorder (PTSD), major depressive (MDD) and anxiety (ANX). The development these is also influenced by genetics have heritability estimates ranging between ∼30 70%. In this review, we provide an overview findings genome-wide association studies for PTSD, depression ANX, observe a clear genetic overlap three...
Now that wearable sensors have become more commonplace, it is possible to monitor individual healthcare-related activity outside the clinic, unleashing potential for early detection of events in diseases such as Parkinson’s disease (PD). However, unsupervised and “open world” nature this type data collection make applications difficult develop. In proof-of-concept study, we used inertial sensor from Verily Study Watches worn by individuals up 23 h per day over several months distinguish...
Abstract The prognosis of advanced metastatic melanoma (American Joint Committee on Cancer (AJCC) stage IV) remains dismal with a 5‐year survival rate 6–18%. In the present study, an integrated MALDI mass spectrometric approach combined artificial neural networks (ANNs) analysis and modeling has been used for identification biomarker ions in serum from IV patients allowing discrimination disease healthy status high specificities 92% protein 100% peptide biomarkers. Our ANNs model also...
More than 16 million Americans provide unpaid care for someone with Alzheimer's disease and related dementias (ADRD). During the COVID-19 pandemic, caregivers experienced increased chronic severe stress from widespread closures social distancing. We conducted eight surveys March 2020 to 2021 among a cohort of over 10,000 individuals. Cross-sectional analysis was investigate frequency ratios groups reporting across surveys. A longitudinal also performed 1,030 participants who took more one...
Enterobacter sakazakii is an emergent pathogen associated with ingestion of infant formula and accurate identification important in both industrial clinical settings. Bacterial species can be difficult to accurately characterise from complex biochemical datasets computer algorithms potentially simplify the process.Artificial Neural Networks were applied 16S rDNA data derived 282 strains Enterobacteriaceae, including 189 E. isolates, order identify key characteristics which could improve...