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  1. Article: CODO: An Ontology for Collection and Analysis of Covid-19 Data

    Dutta, B. / DeBellis, M.

    Abstract: The COviD-19 Ontology for cases and patient information (CODO) provides a model for the collection and analysis of data about the COVID-19 pandemic. The ontology provides a standards-based open-source model that facilitates the integration of data from ... ...

    Abstract The COviD-19 Ontology for cases and patient information (CODO) provides a model for the collection and analysis of data about the COVID-19 pandemic. The ontology provides a standards-based open-source model that facilitates the integration of data from heterogeneous data sources. The ontology was designed by analysing disparate COVID-19 data sources such as datasets, literature, services, etc. The ontology follows the best practices for vocabularies by re-using concepts from other leading vocabularies and by using the W3C standards RDF, OWL, SWRL, and SPARQL. The ontology already has one independent user and has incorporated real-world data from the government of India.
    Keywords covid19
    Publisher ArXiv
    Document type Article
    Database COVID19

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  2. Book ; Online: CODO

    Dutta, B. / DeBellis, M.

    An Ontology for Collection and Analysis of Covid-19 Data

    2020  

    Abstract: The COviD-19 Ontology for cases and patient information (CODO) provides a model for the collection and analysis of data about the COVID-19 pandemic. The ontology provides a standards-based open-source model that facilitates the integration of data from ... ...

    Abstract The COviD-19 Ontology for cases and patient information (CODO) provides a model for the collection and analysis of data about the COVID-19 pandemic. The ontology provides a standards-based open-source model that facilitates the integration of data from heterogeneous data sources. The ontology was designed by analysing disparate COVID-19 data sources such as datasets, literature, services, etc. The ontology follows the best practices for vocabularies by re-using concepts from other leading vocabularies and by using the W3C standards RDF, OWL, SWRL, and SPARQL. The ontology already has one independent user and has incorporated real-world data from the government of India.
    Keywords Computer Science - Information Retrieval ; Computer Science - Artificial Intelligence ; I.2.4 ; covid19
    Publishing date 2020-09-02
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  3. Article: A novel use of the comprehensive complication index in perihilar cholangiocarcinoma surgery.

    Poletto, Edoardo / Conci, Simone / Campagnaro, Tommaso / De Bellis, Mario / Alaimo, Laura / Ruzzenente, Andrea

    Hepatobiliary surgery and nutrition

    2023  Volume 13, Issue 1, Page(s) 139–142

    Language English
    Publishing date 2023-12-28
    Publishing country China (Republic : 1949- )
    Document type Editorial
    ZDB-ID 2812398-0
    ISSN 2304-389X ; 2304-3881
    ISSN (online) 2304-389X
    ISSN 2304-3881
    DOI 10.21037/hbsn-23-585
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  4. Article ; Online: Estimating the similarity of alternative Affymetrix probe sets using transcriptional networks.

    Bellis, Michel

    BMC research notes

    2013  Volume 6, Page(s) 107

    Abstract: Background: The usefulness of the data from Affymetrix microarray analysis depends largely on the reliability of the files describing the correspondence between probe sets, genes and transcripts. Particularly, when a gene is targeted by several probe ... ...

    Abstract Background: The usefulness of the data from Affymetrix microarray analysis depends largely on the reliability of the files describing the correspondence between probe sets, genes and transcripts. Particularly, when a gene is targeted by several probe sets, these files should give information about the similarity of each alternative probe set pair. Transcriptional networks integrate the multiple correlations that exist between all probe sets and supply much more information than a simple correlation coefficient calculated for two series of signals. In this study, we used the PSAWN (Probe Set Assignment With Networks) programme we developed to investigate whether similarity of alternative probe sets resulted in some specific properties.
    Findings: PSAWNpy delivered a full textual description of each probe set and information on the number and properties of secondary targets. PSAWNml calculated the similarity of each alternative probe set pair and allowed finding relationships between similarity and localisation of probes in common transcripts or exons. Similar alternative probe sets had very low negative correlation, high positive correlation and similar neighbourhood overlap. Using these properties, we devised a test that allowed grouping similar probe sets in a given network. By considering several networks, additional information concerning the similarity reproducibility was obtained, which allowed defining the actual similarity of alternative probe set pairs. In particular, we calculated the common localisation of probes in exons and in known transcripts and we showed that similarity was correctly correlated with them. The information collected on all pairs of alternative probe sets in the most popular 3' IVT Affymetrix chips is available in tabular form at http://bns.crbm.cnrs.fr/download.html.
    Conclusions: These processed data can be used to obtain a finer interpretation when comparing microarray data between biological conditions. They are particularly well adapted for searching 3' alternative poly-adenylation events and can be also useful for studying the structure of transcriptional networks. The PSAWNpy, (in Python) and PSAWNml (in Matlab) programmes are freely available and can be downloaded at http://code.google.com/p/arraymatic. Tutorials and reference manuals are available at BMC Research Notes online (Additional file 1) or from http://bns.crbm.cnrs.fr/softwares.html.
    MeSH term(s) Algorithms ; Animals ; Cluster Analysis ; Computational Biology/methods ; Exons ; Gene Expression Profiling/methods ; Gene Regulatory Networks ; Humans ; Mice ; Oligonucleotide Array Sequence Analysis/methods ; Oligonucleotide Probes/genetics ; Probability ; Programming Languages ; Rats ; Reproducibility of Results
    Chemical Substances Oligonucleotide Probes
    Language English
    Publishing date 2013-03-21
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2413336-X
    ISSN 1756-0500 ; 1756-0500
    ISSN (online) 1756-0500
    ISSN 1756-0500
    DOI 10.1186/1756-0500-6-107
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  5. Article ; Online: Predicted and observed impacts of COVID-19 lockdowns: two Health Impact Assessments in Scotland and Wales.

    Green, Liz / Ashton, Kathryn / Bellis, Mark / Clements, Timo / Douglas, Margaret

    Health promotion international

    2022  Volume 37, Issue 6

    Abstract: Health Impact Assessment is a key approach used internationally to identify positive or negative impacts of policies, plans and proposals on health and well-being. In 2020, HIAs were undertaken in Scotland and Wales to identify the potential health and ... ...

    Abstract Health Impact Assessment is a key approach used internationally to identify positive or negative impacts of policies, plans and proposals on health and well-being. In 2020, HIAs were undertaken in Scotland and Wales to identify the potential health and well-being impacts of the 'stay at home' and physical distancing measures implemented at the start of the coronavirus disease (COVID-19) pandemic. There is sparse evidence evaluating whether the impacts predicted in HIAs occur following policy implementation. This paper evaluates the impacts anticipated in the COVID-19 HIAs against actual observed trends. The processes undertaken were compared and predicted impacts were tabulated by population groups and main determinants of health. Routine data and literature evidence were collated to compare predicted and observed impacts. Nearly all health impacts anticipated in both HIAs have occurred in the direction predicted. There have been significant adverse impacts through multiple direct and indirect pathways including loss of income, social isolation, disruption to education and services, and psychosocial effects. This research demonstrates the value of prediction in impact assessment and fills a gap in the literature by comparing the predicted impacts identified within the HIAs with observed trends. Post-COVID-19 recovery should centre health and well-being within future policies and decisions. Processes like HIA can support this as part of a 'health in all policies' approach to improve the health and well-being of populations.
    MeSH term(s) Humans ; Health Impact Assessment ; Wales/epidemiology ; COVID-19/prevention & control ; Communicable Disease Control ; Policy
    Language English
    Publishing date 2022-11-11
    Publishing country England
    Document type Journal Article
    ZDB-ID 1027448-0
    ISSN 1460-2245 ; 0957-4824
    ISSN (online) 1460-2245
    ISSN 0957-4824
    DOI 10.1093/heapro/daac134
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  6. Article ; Online: Blockers of Skeletal Muscle Na

    De Bellis, Michela / Boccanegra, Brigida / Cerchiara, Alessandro Giovanni / Imbrici, Paola / De Luca, Annamaria

    International journal of molecular sciences

    2023  Volume 24, Issue 1

    Abstract: The voltage-gated sodium channels represent an important target for drug discovery since a large number of physiological processes are regulated by these channels. In several excitability disorders, including epilepsy, cardiac arrhythmias, chronic pain, ... ...

    Abstract The voltage-gated sodium channels represent an important target for drug discovery since a large number of physiological processes are regulated by these channels. In several excitability disorders, including epilepsy, cardiac arrhythmias, chronic pain, and non-dystrophic myotonia, blockers of voltage-gated sodium channels are clinically used. Myotonia is a skeletal muscle condition characterized by the over-excitability of the sarcolemma, resulting in delayed relaxation after contraction and muscle stiffness. The therapeutic management of this disorder relies on mexiletine and other sodium channel blockers, which are not selective for the Na
    MeSH term(s) Humans ; Mexiletine/pharmacology ; Mexiletine/therapeutic use ; Muscle, Skeletal/drug effects ; Myotonia/drug therapy ; NAV1.4 Voltage-Gated Sodium Channel/metabolism ; Syndrome ; Voltage-Gated Sodium Channel Blockers/pharmacology ; Voltage-Gated Sodium Channel Blockers/therapeutic use
    Chemical Substances Mexiletine (1U511HHV4Z) ; NAV1.4 Voltage-Gated Sodium Channel ; Voltage-Gated Sodium Channel Blockers
    Language English
    Publishing date 2023-01-03
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms24010857
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  7. Book ; Online: Opportunities for theory studies with public collider data

    Bellis, Matt / Shuve, Brian / Barth, Anna / Cook, Andres

    Snowmass 2021

    2022  

    Abstract: Over the last 20+ years, experimentalists have presented tantalizing hints of physics beyond the standard model, but nothing definitive. With the wealth of data from experiments, in particular the collider experiments, it is imperative that the community ...

    Abstract Over the last 20+ years, experimentalists have presented tantalizing hints of physics beyond the standard model, but nothing definitive. With the wealth of data from experiments, in particular the collider experiments, it is imperative that the community leave no reasonable model untested and no search unsought. Open datasets from particle physics experiments provide a relatively new and exciting opportunity to extend the reach of these searches by bringing in additional personpower in the form of the theory community. Analysis of these datasets also provides the opportunity for an increased information flow between theorists and experimentalists, an activity which can only benefit the entire field. This paper discusses the potential of this effort, informed by the successes of the last 5 years in the form of results produced by theorists making use of open collider data, primarily the datasets released by the CMS collaboration. Concerns about the potential negative impact on the field are also discussed. For a more detailed accounting of these concerns, see Ref. [1] of the bibliography.

    Comment: Submitted to the Proceedings of the US Community Study on the Future of Particle Physics (Snowmass 2021) Theory Frontier: Collider Phenomenology (TF07)
    Keywords High Energy Physics - Phenomenology ; High Energy Physics - Experiment ; High Energy Physics - Theory
    Subject code 306
    Publishing date 2022-08-16
    Publishing country us
    Document type Book ; Online
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  8. Article ; Online: ASO Author Reflections: Hepatopancreatoduodenectomy: Why, When, and How?

    Iacono, Calogero / De Bellis, Mario / Guglielmi, Alfredo

    Annals of surgical oncology

    2020  Volume 27, Issue 9, Page(s) 3358–3359

    MeSH term(s) Hepatectomy ; Humans ; Pancreaticoduodenectomy
    Language English
    Publishing date 2020-05-07
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1200469-8
    ISSN 1534-4681 ; 1068-9265
    ISSN (online) 1534-4681
    ISSN 1068-9265
    DOI 10.1245/s10434-020-08569-5
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    In stock of ZB MED Cologne/Königswinter

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  9. Article ; Online: ASO Author Reflections: Transdiaphragmatic Approach for Simultaneous Resection of Colorectal Liver and Lung Metastases.

    De Bellis, Mario / Mehran, Reza J / Vauthey, Jean-Nicolas

    Annals of surgical oncology

    2020  Volume 27, Issue Suppl 3, Page(s) 859–860

    MeSH term(s) Colorectal Neoplasms/surgery ; Hepatectomy ; Humans ; Liver Neoplasms/secondary ; Liver Neoplasms/surgery ; Lung Neoplasms/secondary ; Lung Neoplasms/surgery
    Language English
    Publishing date 2020-07-25
    Publishing country United States
    Document type Journal Article
    ZDB-ID 1200469-8
    ISSN 1534-4681 ; 1068-9265
    ISSN (online) 1534-4681
    ISSN 1068-9265
    DOI 10.1245/s10434-020-08942-4
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    In stock of ZB MED Cologne/Königswinter

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  10. Article ; Online: Heart of glass: fatal hematemesis caused by bronchiole-cardiac fistula.

    Bellis, Maggie / Cunningham, Kristopher S / Pickup, Michael J

    Forensic science, medicine, and pathology

    2020  Volume 17, Issue 2, Page(s) 334–337

    Abstract: A 58-year old woman presented for autopsy after having been found unresponsive in a public bathroom surrounded by a pool of blood. During attempts at resuscitation, blood was noted in her airway. She had a past medical history that included surgical ... ...

    Abstract A 58-year old woman presented for autopsy after having been found unresponsive in a public bathroom surrounded by a pool of blood. During attempts at resuscitation, blood was noted in her airway. She had a past medical history that included surgical repair of Tetralogy of Fallot as a child. At autopsy, a shard of glass was identified projecting from the surface of the left lung, having formed densely fibrotic adhesions at the pleural surface. The glass also penetrated through a bronchiole lumen and into a previously surgically repaired bulging right ventricular outflow tract, forming a bronchiole-cardiac fistula, allowing for the massive hemoptysis that led to her death. After further inquiry, it was discovered that the decedent also had a history of seizure disorder and had fallen through a glass door during a seizure many years ago, requiring several shards of glass to be removed from her chest wall.
    MeSH term(s) Bronchioles ; Fatal Outcome ; Female ; Fistula ; Heart Ventricles ; Hematemesis/etiology ; Humans ; Middle Aged
    Language English
    Publishing date 2020-11-27
    Publishing country United States
    Document type Case Reports ; Journal Article
    ZDB-ID 2195904-3
    ISSN 1556-2891 ; 1547-769X
    ISSN (online) 1556-2891
    ISSN 1547-769X
    DOI 10.1007/s12024-020-00320-6
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