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DrugClust
Background: Identification of underlying mechanisms behind drugs side effects is of extreme interest and
importance in drugs discovery today. Therefore machine learning methodology, linking such different
multi features aspects...
Isolation and Comparative Transcriptome Analysis of Human Fetal and iPSC-Derived Cone Photoreceptor Cells.
Emily Welby, Jorn Lakowski, Valentina Di Foggia, Dimitri Budinger, Anai Gonzalez-Cordero, Aaron TL Lun, Michael Epstein, Aara Patel, Elisa Cuevas, Kamil Kruczek, Arifa Naeem, Federico Minneci, Mike Hubank, David T Jones, John C Marioni, Robin R Ali, Jane C Sowden
May 23, 2018
Loss of cone photoreceptors, crucial for daylight vision, has the greatest impact on sight in retinal degeneration. Transplantation of stem cell-derived L/M-opsin cones, which form 90% of the human cone population, could provide...
cell surface markers cell transplantation therapy cone photoreceptor cells Human pluripotent stem cells Retinal Dystrophies retinal organoids Transcriptome Cell Differentiation Fetus Gene Expression Profiling Gene Expression Regulation Developmental Humans Induced Pluripotent Stem Cells Retina Retinal Cone Photoreceptor Cells Retinal Degeneration Rod Opsins Transcriptome
Multilayer modelling of the human transcriptome and biological mechanisms of complex diseases and traits.
Here, we performed a comprehensive intra-tissue and inter-tissue multilayer network analysis of the human transcriptome. We generated an atlas of communities in gene co-expression networks in 49 tissues (GTEx v8), evaluated...
Published by: NPJ systems biology and applications
Multilayer modelling of the human transcriptome and biological mechanisms of complex diseases and traits.
Here, we performed a comprehensive intra-tissue and inter-tissue multilayer network analysis of the human transcriptome. We generated an atlas of communities in gene co-expression networks in 49 tissues (GTEx v8), evaluated...
The experience of cognitive intrusion of pain
Nina Attridge, Geert Crombez, Dimitri Van Ryckeghem, Edmund Keogh, Christopher Eccleston
Oct 31, 2015
Patients with chronic pain often report their cognition to be impaired by pain, and this observation has been supported by numerous studies measuring the effects of pain on cognitive task performance. Furthermore, cognitive...
The Effect of Monitoring
BACKGROUND: The impact of surveying on individuals’ behavior and decision making has been widely studied in academic literature on market research but not so much the impact of monitoring on economic development interventions. ...
Crystal structure of DNA-PKcs reveals a large open-ring cradle comprised of HEAT repeats.
Broken chromosomes arising from DNA double-strand breaks result from endogenous events such as the production of reactive oxygen species during cellular metabolism, as well as from exogenous sources such as ionizing radiation....
Crystal structure of the PepSY-containing domain of the YpeB protein involved in germination of bacillus spores.
The efficacy of attentional distraction and sensory monitoring in chronic pain patients
Attentional strategies, such as distraction and sensory monitoring, are often offered to reduce pain and pain-related distress. However, evidence for their efficacy in chronic pain patients is equivocal. We report a...
The efficacy of attentional distraction and sensory monitoring in chronic pain patients
Attentional strategies, such as distraction and sensory monitoring, are often offered to reduce pain and pain-related distress. However, evidence for their efficacy in chronic pain patients is equivocal. We report a...
The crystal structure of Clostridium perfringens SleM, a muramidase involved in cortical hydrolysis during spore germination.
Bahja Al-Riyami, Fatma Işık Üstok, Katherine Stott, Dimitri Y Chirgadze, Graham Christie
Sep 16, 2016
GH25 family cortex lytic enzyme peptidoglycan lysin spore Bacterial Proteins Catalytic Domain Cloning Molecular Clostridium perfringens Crystallography X-Ray Escherichia coli Fibronectin Type III Domain Gene Expression Hydrolysis Models Molecular Muramidase Peptidoglycan Protein Multimerization Protein Structure Secondary Recombinant Proteins Spores Bacterial
A multiplex network approach for the analysis of intracranial pressure and heart rate data in traumatic brain injured patients.
Giovanna Maria Dimitri, Shruti Agrawal, Adam Young, Joseph Donnelly, Xiuyun Liu, Peter Smielewski, Peter Hutchinson, Marek Czosnyka, Pietro Lió, Christina Haubrich
Feb 22, 2019
BACKGROUND: We present a multiplex network model for the analysis of Intracranial Pressure (ICP) and Heart Rate (HR) behaviour after severe brain traumatic injuries in pediatric patients. The ICP monitoring is of vital...
Structural insights into the role of domain flexibility in human DNA ligase IV.
Takashi Ochi, Qian Wu, Dimitri Y Chirgadze, J Günter Grossmann, Victor M Bolanos-Garcia, Tom L Blundell
Mar 12, 2021
Knowledge of the architecture of DNA ligase IV (LigIV) and interactions with XRCC4 and XLF-Cernunnos is necessary for understanding its role in the ligation of double-strand breaks during nonhomologous end joining. Here we...
Catalytic Domain Chromatography Gel DNA DNA Breaks Double-Stranded DNA Ligase ATP DNA Ligases DNA Nucleotidyltransferases DNA Repair DNA Repair Enzymes DNA-Binding Proteins Escherichia coli Humans Models Molecular Protein Binding Protein Structure Secondary Protein Structure Tertiary Recombinant Proteins SCATTERING Small Angle X-Ray Diffraction
Simultaneous Transients of Intracranial Pressure and Heart Rate in Traumatic Brain Injury
Giovanna Maria Dimitri, Shruti Agrawal, Adam Young, Joseph Donnelly, Xiuyun Liu, Peter Smielewski, Peter Hutchinson, Marek Czosnyka, Pietro Lio, Christina Haubrich
Aug 02, 2019
OBJECTIVES: The detection of increasing intracranial pressure (ICP) is important in preventing secondary brain injuries. Before mean ICP increases critically, transient ICP elevations may be observed. We have observed ICP...
A multiplex network approach for the analysis of intracranial pressure and heart rate data in traumatic brain injured patients
Giovanna Maria Dimitri, Shruti Agrawal, Adam Young, Joseph Donnelly, Xiuyun Liu, Peter Smielewski, Peter Hutchinson, Marek Czosnyka, Pietro Lió, Christina Haubrich
Aug 31, 2017
Abstract
Background
We present a multiplex network model for the analysis of Intracranial Pressure (ICP) and Heart Rate (HR) behaviour after severe brain traumatic injuries in...
CryoEM structures of human CMG-ATPγS-DNA and CMG-AND-1 complexes.
Neil J Rzechorzek, Steven W Hardwick, Vincentius A Jatikusumo, Dimitri Y Chirgadze, Luca Pellegrini
May 13, 2020
DNA unwinding in eukaryotic replication is performed by the Cdc45-MCM-GINS (CMG) helicase. Although the CMG architecture has been elucidated, its mechanism of DNA unwinding and replisome interactions remain poorly understood....
Classification of degenerative parkinsonism subtypes by support-vector-machine analysis and striatal 123I-FP-CIT indices.
Nicolas Nicastro, Jennifer Wegrzyk, Maria Giulia Preti, Vanessa Fleury, Dimitri Van de Ville, Valentina Garibotto, Pierre R Burkhard
Apr 26, 2019
OBJECTIVES: To provide an automated classification method for degenerative parkinsonian syndromes (PS) based on semiquantitative 123I-FP-CIT SPECT striatal indices and support-vector-machine (SVM) analysis. METHODS: 123I-FP-CIT...
Integration of Machine Learning Methods to Dissect Genetically Imputed Transcriptomic Profiles in Alzheimer's Disease.
Carlo Maj, Tiago Azevedo, Valentina Giansanti, Oleg Borisov, Giovanna Maria Dimitri, Simeon Spasov, Alzheimer’s Disease Neuroimaging Initiative, Pietro Lió, Ivan Merelli
Dec 06, 2019
Quantitative analysis of the ACL and PCL using T1rho and T2 relaxation time mapping
Chanuka DS Ranmuthu, James W Mackay, Victoria A Crowe, Joshua Kaggie, Dimitri A Kessler, Stephen McDonnell
Sep 30, 2021
Anterior Cruciate Ligament Osteoarthritis Posterior Cruciate Ligament T1rho mapping T2 mapping Anterior Cruciate Ligament Anterior Cruciate Ligament Injuries Cartilage Articular Cross-Sectional Studies Humans Knee Joint Magnetic Resonance Imaging Posterior Cruciate Ligament Reproducibility of Results
Structural and functional analysis of SleL, a peptidoglycan lysin involved in germination of Bacillus spores.
The experience of cognitive intrusion of pain
Nina Attridge, Geert Crombez, Dimitri Van Ryckeghem, Edmund Keogh, Christopher Eccleston
Oct 31, 2015
Patients with chronic pain often report their cognition to be impaired by pain, and this observation has been supported by numerous studies measuring the effects of pain on cognitive task performance. Furthermore, cognitive...
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