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Epigenetic and Transcriptional Variability Shape Phenotypic Plasticity.
Epigenetic and transcriptional variability contribute to the vast diversity of cellular and organismal phenotypes and are key in human health and disease. In this review, we describe different types, sources, and determinants of...
3D chromatin structure DNA Methylation biological noise Chromatin epigenetics Gene Expression genome architecture Heterogeneity Transcription variability Adaptation Physiological Biological Variation Individual Biological Variation Population Chromatin Epigenesis Genetic genetic variation Humans Precision Medicine Transcription Genetic
How to Design AI-Driven Clinical Trials in Nuclear Medicine.
Gaspar Delso, Davide Cirillo, Joshua D Kaggie, Alfonso Valencia, Ur Metser, Patrick Veit-Haibach
Nov 03, 2020
Artificial intelligence (AI) is an overarching term for a multitude of technologies which are currently being discussed and introduced in several areas of medicine and in medical imaging specifically. There is, however, limited...
A user guide for the online exploration and visualization of PCAWG data
Mary J. Goldman, Junjun Zhang, Nuno A. Fonseca, Isidro Cortés-Ciriano, Qian Xiang, Brian Craft, Elena Piñeiro-Yáñez, Brian D. O’Connor, Wojciech Bazant, Elisabet Barrera, Alfonso Muñoz-Pomer, Robert Petryszak, Anja Füllgrabe, Fatima Al-Shahrour, Maria Keays, David Haussler, John N. Weinstein, Wolfgang Huber, Alfonso Valencia, Peter J. Park, Irene Papatheodorou, Jingchun Zhu, Vincent Ferretti, Miguel Vazquez
Jul 07, 2020
A user guide for the online exploration and visualization of PCAWG data.
Mary J Goldman, Junjun Zhang, Nuno A Fonseca, Isidro Cortés-Ciriano, Qian Xiang, Brian Craft, Elena Piñeiro-Yáñez, Brian D O'Connor, Wojciech Bazant, Elisabet Barrera, Alfonso Muñoz-Pomer, Robert Petryszak, Anja Füllgrabe, Fatima Al-Shahrour, Maria Keays, David Haussler, John N Weinstein, Wolfgang Huber, Alfonso Valencia, Peter J Park, Irene Papatheodorou, Jingchun Zhu, Vincent Ferretti, Miguel Vazquez
Jul 07, 2021
Evidence for downregulation of the negative regulator SPRED2 in clinical prostate cancer.
BACKGROUND: SPRED1 and 2 are key negative regulators of MAPK signalling in mammalian cells. Here, we investigate the expression and functional role of SPREDs in prostate cancer. METHODS: A transcriptome bank of microdissected...
Adaptor Proteins Signal Transducing Blotting Western Cell Movement Cell Proliferation Cohort Studies Down-Regulation Dual Specificity Phosphatase 1 Humans Intracellular Signaling Peptides and Proteins Male Membrane Proteins Neoplasm Grading Prognosis Prostatic Hyperplasia Prostatic Neoplasms RNA Messenger RNA Small Interfering Real-Time Polymerase Chain Reaction Receptors Interleukin Repressor Proteins Reverse Transcriptase Polymerase Chain Reaction Signal Transduction Tumor Cells Cultured
Membrane Interactions and Toxicity by Misfolded Protein Oligomers.
The conversion of otherwise soluble proteins into insoluble amyloid aggregates is associated with a range of neurodegenerative disorders, including Alzheimer's and Parkinson's diseases, as well as non-neuropathic conditions such...
In November 2013, one of the biggest tropical storms in history hit the Philippines, the second most vulnerable country in its exposure to natural hazards according to the World Risk Report 2014. A team from the group Natural...
Published by: Ediciones ARQ
On the nature and function of organizers.
Organizers, which comprise groups of cells with the ability to instruct adjacent cells into specific states, represent a key principle in developmental biology. The concept was first introduced by Spemann and Mangold, who showed...
Using self-adaptive optimisation methods to perform sequential optimisation for low-energy building design
The use of software tools to aid building design, or to show compliance, is now commonplace. This has motivated investigations into the potential of optimisation algorithms, used in such software, to automatically optimise...
Multi-Class Cost-Constrained Random Coding for Correlated Sources over the Multiple-Access Channel.
This paper studies a generalized version of multi-class cost-constrained random-coding ensemble with multiple auxiliary costs for the transmission of N correlated sources over an N-user multiple-access channel. For...
Wnt/ß-catenin signalling and the dynamics of fate decisions in early mouse embryos and embryonic stem (ES) cells
tWnt/ß-catenin signalling is a widespread cell signalling pathway with multiple roles during vertebrate development. In mouse embryonic stem (mES) cells, there is a dual role for ß-catenin: it promotes differentiation when...
The structure of Wntch signalling and the resolution of transition states in development
During development, the emergence of different cell fates and their patterning into tissues and organs requires spatio-temporal coordination that controls the relative number of different cell types. Genetic analyses in...
The structure of Wntch signalling and the resolution of transition states in development
During development, the emergence of different cell fates and their patterning into tissues and organs requires spatio-temporal coordination that controls the relative number of different cell types. Genetic analyses in...
Information-Theoretic Foundations of Mismatched Decoding
Shannon’s channel coding theorem characterizes the maximal rate of information that can be reliably transmitted over a communication channel when optimal encoding and decoding strategies are used. In many scenarios, however...
The reliability of inverse modelling for the wide scale characterization of the thermal properties of buildings
Alfonso P. Ramallo-González, Matthew Brown, Elizabeth Gabe-Thomas, Tom Lovett, David A. Coley
Jan 01, 0001
The reduction of energy use in buildings is a major component of greenhouse gas mitigation policy and requires knowledge of the fabric and the occupant behaviour. Hence there has been a longstanding desire to use automatic...
Energy efficiency inverse modelling lumped parameter model smart metre /dk/atira/pure/subjectarea/asjc/2200/2216 name=Architecture /dk/atira/pure/subjectarea/asjc/2200/2215 name=Building and Construction /dk/atira/pure/subjectarea/asjc/2600/2611 name=Modelling and Simulation /dk/atira/pure/subjectarea/asjc/1700/1706 name=Computer Science Applications /dk/atira/pure/sustainabledevelopmentgoals/affordable_and_clean_energy name=SDG 7 - Affordable and Clean Energy
Multi-Class Cost-Constrained Random Coding for Correlated Sources over the Multiple-Access Channel
This paper studies a generalized version of multi-class cost-constrained random-coding ensemble with multiple auxiliary costs for the transmission of N correlated sources over an N-user multiple-access channel. For each user...
Wnt/ß-catenin signalling and the dynamics of fate decisions in early mouse embryos and embryonic stem (ES) cells
tWnt/ß-catenin signalling is a widespread cell signalling pathway with multiple roles during vertebrate development. In mouse embryonic stem (mES) cells, there is a dual role for ß-catenin: it promotes differentiation when...
Integrins regulate epithelial cell shape by controlling the architecture and mechanical properties of basal actomyosin networks.
Carmen Santa-Cruz Mateos, Andrea Valencia-Expósito, Isabel M Palacios, María D Martín-Bermudo
Dec 07, 2020
Forces generated by the actomyosin cytoskeleton are key contributors to many morphogenetic processes. The actomyosin cytoskeleton organises in different types of networks depending on intracellular signals and on cell-cell and...
Lumped parameter models for building thermal modelling
There are many sophisticated building simulators capable of accurately modelling the thermal performance of buildings. Lumped Parameter Models (LPMs) are an alternative which, due to their shorter computational time, can be used...
Pathway and network analysis of more than 2500 whole cancer genomes.
Matthew A Reyna, David Haan, Marta Paczkowska, Lieven PC Verbeke, Miguel Vazquez, Abdullah Kahraman, Sergio Pulido-Tamayo, Jonathan Barenboim, Lina Wadi, Priyanka Dhingra, Raunak Shrestha, Gad Getz, Michael S Lawrence, Jakob Skou Pedersen, Mark A Rubin, David A Wheeler, Søren Brunak, Jose MG Izarzugaza, Ekta Khurana, Kathleen Marchal, Christian von Mering, S Cenk Sahinalp, Alfonso Valencia, PCAWG Drivers and Functional Interpretation Working Group, Jüri Reimand, Joshua M Stuart, Benjamin J Raphael, PCAWG Consortium
Feb 04, 2021
The catalog of cancer driver mutations in protein-coding genes has greatly expanded in the past decade. However, non-coding cancer driver mutations are less well-characterized and only a handful of recurrent non-coding...
Genome-wide analysis of differential transcriptional and epigenetic variability across human immune cell types
Simone Ecker, Lu Chen, Vera Pancaldi, Frederik O Bagger, José M Fernández, Enrique Carrillo de Santa Pau, David Juan, Alice L Mann, Stephen Watt, Francesco P Casale, Nikos Sidiropoulos, Nicolas Rapin, Angelika Merkel, Hendrik G Stunnenberg, Oliver Stegle, Mattia Frontini, Kate Downes, Tomi Pastinen, Taco W Kuijpers, Daniel Rico, Alfonso Valencia, Stephan Beck, Nicole Soranzo, Dirk S Paul
Jan 27, 2017
Abstract
Background
A healthy immune system requires immune cells that adapt rapidly to environmental challenges. This phenotypic plasticity can be mediated by transcriptional and...
Neuro-mesodermal progenitors (NMPs)
The mammalian embryo's caudal lateral epiblast (CLE) harbours bipotent progenitors, called neural mesodermal progenitors (NMPs), that contribute to the spinal cord and the paraxial mesoderm throughout axial elongation. Here, we...
neuromesodermal progenitors Single cells Transcription Animals Body Patterning Cell Differentiation Cell Lineage Embryo Mammalian Embryonic Stem Cells Female Gene Expression Profiling Gene Expression Regulation Developmental Germ Layers Green Fluorescent Proteins In Vitro Techniques Male Mesoderm Mice Neural Stem Cells Pluripotent Stem Cells Spinal Cord Stem Cells Support Vector Machine Transcriptome
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