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A Method to Explore the Connectivity Patterns of Proteins and Drugs for Identifying Disease Communities

Ken McGarry, David Nelson, Mark Ashton
2020 SN Computer Science  
We verify their role in disease with respect to targeting drugs more effectively with expert opinion.  ...  We have been able to identify various modules that make sense from a biological and medical perspective and validate drug repositioning candidates with  ...  Acknowledgements We would like to thank the anonymous reviewers for their helpful comments which have improved the paper.  ... 
doi:10.1007/s42979-020-00151-w fatcat:vpmmivni5japhhzvphhkdcohpy

A side-effect free method for identifying cancer drug targets

Md. Izhar Ashraf, Seng-Kai Ong, Shama Mujawar, Shrikant Pawar, Pallavi More, Somnath Paul, Chandrajit Lahiri
2018 Scientific Reports  
Here, we put forward an integrated method of analysing a complex network of cancer and depict the importance of k-core, functional connectivity and centrality (KFC) for identifying effective drug targets  ...  A potential pitfall of failing to uncover the correct drug targets, due to side effect of pleiotropic genes, might lead the potential drugs to be illicit and withdrawn.  ...  Acknowledgements The authors wish to acknowledge the support The Institute of Mathematical Sciences, Chennai, India along with Sunway University, Selangor, Malaysia for the provision of necessary computational  ... 
doi:10.1038/s41598-018-25042-2 pmid:29703908 pmcid:PMC5923273 fatcat:pp7zxnsrtfbudeiz5g5xle3dfq

Connectivity characterization of the mouse basolateral amygdalar complex [article]

Houri Hintiryan, Ian Bowman, David L. Johnson, Laura Korobkova, Muye Zhu, Neda Khanjani, Lin Gou, Lei Gao, Seita Yamashita, Michael S. Bienkowski, Luis Garcia, Nicholas N. Foster (+20 others)
2019 bioRxiv   pre-print
In this work, we applied computational analysis techniques to the results of our circuit-tracing experiments to create a foundational, comprehensive, multiscale connectivity atlas of the mouse BLA.  ...  Thus, a systematic and detailed connectivity profile of BLA projection neurons to inform granular, cell type-specific interrogations is warranted.  ...  Our experiments used code provided by the authors online, where we first computed persistence diagrams using NeuronTools ( and then computed inter-neuron distances  ... 
doi:10.1101/807743 fatcat:zc6eoy3oh5dm3h5cf3m4del6ui

Synthesis and characterization of new ferrocene, porphyrin and C60 triads, connected by triple bonds

Pietro Tagliatesta, Roberto Pizzoferrato
2015 Journal of Organometallic Chemistry  
This new approach could be useful to overcome tumours resistance for antitumor drugs.  ...  In these studies a lot of interest was addressed to the possible targeted release of drugs and consequent decrease of side effects.  ... 
doi:10.1016/j.jorganchem.2015.04.006 fatcat:tib3j3bdybhqhmksovztzootnq

Ventral Striatal D2/3 Receptor Availability Is Associated with Impulsive Choice Behavior As Well As Limbic Corticostriatal Connectivity

Rebecca L Barlow, Martin Gorges, Alfie Wearn, Heiko G Niessen, Jan Kassubek, Jeffrey W Dalley, Anton Pekcec
2018 International Journal of Neuropsychopharmacology  
This dissociation may be causal or consequential to enhanced functional connectivity of limbic brain circuitry and hold relevance for attention-deficit/hyperactivity disorder, drug addiction, and other  ...  Low dopamine D 2/3 receptor availability in the nucleus accumbens shell is associated with highly impulsive behavior in rats as measured by premature responses in a cued attentional task.  ...  Significance Statement Understanding the neurobiology underlying choice impulsivity, a psychiatric symptom with cross-diagnostic significance, is key to identifying novel therapies for treating impulsivity  ... 
doi:10.1093/ijnp/pyy030 pmid:29554302 pmcid:PMC6030945 fatcat:7kfirw6cxnddffw4cutsy34ipq

Quantitative mapping of the brain's structural connectivity using diffusion MRI tractography: a review [article]

Fan Zhang, Alessandro Daducci, Yong He, Simona Schiavi, Caio Seguin, Robert Smith, Chun-Hung Yeh, Tengda Zhao, Lauren J. O'Donnell
2021 arXiv   pre-print
In this paper, we provide a high-level overview of how tractography is used to enable quantitative analysis of the brain's structural connectivity in health and disease.  ...  Over the last two decades, the study of brain connectivity using dMRI tractography has played a prominent role in the neuroimaging research landscape.  ...  CHY is grateful to the Ministry of Science and Technology of Taiwan (MOST 109-2222-E-182-001-MY3) for the support.  ... 
arXiv:2104.11644v1 fatcat:l3ixpcwu7jb7zcqo2sm5pswmja

Resolving the connectome - Spectrally-specific functional connectivity networks and their distinct contributions to behaviour [article]

Robert Becker, Alexis Hervais-Adelman
2019 bioRxiv   pre-print
In a group of 89 participants we examined spectrally-resolved resting-state connectivity patterns derived from MEG recordings to determine the relationship between connectivity intrinsic to different frequency  ...  Examination of inter-areal coupling of resting state oscillatory activity reveals that the brain's resting activity is composed of functionally connected networks, which differ depending upon oscillatory  ...  timely, and provides a basis for considering potential network-level targets for novel neuromodulatory interventions. .  ... 
doi:10.1101/700278 fatcat:2ajx3eousbgobk7dmiikfuu5nm

Control of Functional Connectivity in Cerebral Cortex by Basal Ganglia Mediated Synchronization [article]

Daniel Pouzzner
2020 arXiv   pre-print
reflect corticocortical anatomical connectivity.  ...  of cortex, synchronizing those areas and functionally connecting them.  ...  Finkelstein A, Fontolan L, Economo MN, Li N, Romani S, Svoboda K (2019 ‡ ).  ... 
arXiv:1708.00779v2 fatcat:3mbrakwdgfewpcdggox5v6mwme

Particle and nuclear physics instrumentation and its broad connections

M. Demarteau, R. Lipton, H. Nicholson, I. Shipsey
2016 Reviews of Modern Physics  
Subatomic physics shares with other basic sciences the need to innovate, invent, and develop tools, techniques, and technologies to carry out its mission to explore the nature of matter, energy, space,  ...  In most cases, however, the development of new devices and technologies by particle physics for its own research has added value to other fields of research or to applications beneficial to society by  ...  Acknowledgments 44 ACKNOWLEDGMENTS The authors would like to acknowledge the support and assistance of Reviews of Modern Physics Editor Paul Grannis.  ... 
doi:10.1103/revmodphys.88.045007 fatcat:43oupgsmfndgdd5yczwvrztdfy

Resolving the connectome – Spectrally-specific functional connectivity networks and their distinct contributions to behaviour

Robert Becker, Alexis Hervais-Adelman
2020 eNeuro  
Using canonical correlation analysis, we examined spectrally resolved resting-state connectivity patterns derived from magnetoencephalography (MEG) recordings to determine the relationship between connectivity  ...  intrinsic to different frequency channels and a battery of over a hundred behavioural and demographic indicators, in a group of 89 young healthy participants.  ...  networks is all the more timely, and provides a basis for considering potential network-level targets for novel neuromodulatory interventions.  ... 
doi:10.1523/eneuro.0101-20.2020 pmid:32826259 pmcid:PMC7484267 fatcat:22pjh4jixnbt7ilwquafz35lti

Partial anomalous pulmonary venous connection: how many vs. how much

Brian Grant, Shi-Joon Yoo, Mike T Seed, Lars Grosse-Wortmann
2009 Journal of Cardiovascular Magnetic Resonance  
Prior to implantation (36 ± 78 days) patients were investigated on a 1.5 T clinical scanner (Siemens Avanto © , Germany) to assess left ventricular function (LVEF), LV end-diastolic volume (LVEDV) and  ...  Hypothesis: ceCMR can identify the subgroup developing VA in patients with prophylactic ICD implantation following MADIT criteria.  ...  Conclusion: We presented a robust, accurate and efficient method for the fully automatic delineation of the myocardium contours in LA + SA cine CMR images, which can be used for accurate LV functional  ... 
doi:10.1186/1532-429x-11-s1-p274 fatcat:hs2itajso5ezlgg2ywbqa2b7m4

Introduction to JINS Special Issue on Human Brain Connectivity in the Modern Era: Relevance to Understanding Health and Disease

Deanna M. Barch, Mieke Verfaellie, Stephen M. Rao
2016 Journal of the International Neuropsychological Society  
JINS Vo l u m e 2 2 , N u m b e r 2 F e b r u a r y 2 0 1 6 I S S N 1 3 5 5 -6 1 7 7  ...  Medial prefrontal cortex and self-referential mental activity: Relation to a default mode of brain function.  ...  Scanning was carried out at the Athinoula A.  ... 
doi:10.1017/s1355617716000047 fatcat:f2preenihbes5ftkrxbo7tgt64

TEST THE FACE: A Relational Art Project [chapter]

Myriam Romero
2020 Art Education: Conflicts and Connections  
After some trouble with the wifi connection to the printer, we figured out that I needed to use my memory-stick and connect directly to the museum-computer.  ...  .; Gunn, A.; Brice, A.; Alley, K. (2015). Exploring Names and Identity Through Multicultural Literature in K-8 Classrooms.  ... 
doi:10.24981/2020-4-2 fatcat:toeycrpynvchvcmatoxkjhjnby

FEW: A workflow tool for free energy calculations of ligand binding

Nadine Homeyer, Holger Gohlke
2013 Journal of Computational Chemistry  
In the later stages of drug design projects, accurately predicting relative binding affinities of chemically similar compounds to a biomolecular target is of utmost importance for making decisions based  ...  reduced with FEW compared to a fully manual procedure.  ...  We are grateful to Bayer Pharma AG for financial support and to the ' 'Zentrum für Informations-und Medientechnologie' ' (ZIM) at the Heinrich Heine University for computational support.  ... 
doi:10.1002/jcc.23218 pmid:23288722 fatcat:j5vhv6untrbbdevwynpwh6v3ya

SPA-LN: a scoring function of ligand–nucleic acid interactions via optimizing both specificity and affinity

Zhiqiang Yan, Jin Wang
2017 Nucleic Acids Research  
Nucleic acids have been widely recognized as potential targets in drug discovery and aptamer selection.  ...  Quantifying the interactions between small molecules and nucleic acids is critical to discover lead compounds and design novel aptamers.  ...  ACKNOWLEDGEMENT The authors thank Computing Center of Jilin Province for computational support.  ... 
doi:10.1093/nar/gkx255 pmid:28431169 pmcid:PMC5499587 fatcat:abr54zqyjvc5poz2phr3pbna2q
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