Modern Life Science: of computers and men
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Modern Life Science: of computers and men
The information platform for modern life-scientists
Curated by Sandrine Palcy
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Cette intelligence artificielle reconnaît les personnes aux tendances suicidaires

Cette intelligence artificielle reconnaît les personnes aux tendances suicidaires | Modern Life Science: of computers and men | Scoop.it
En analysant l'activité cérébrale, l'algorithme arrive même à repérer les patients ayant déjà tenté de passer à l'acte.
Sandrine Palcy's insight:
La machine ne lit pas encore dans les pensées, mais on pourrait parfois le croire. Comme dans cette étude, publiée par Nature ce lundi 30 octobre, où une intelligence artificielle arrive à savoir si une personne a des tendances suicidaires.
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Bioinformatics vs Computational Biology

Bioinformatics vs Computational Biology | Modern Life Science: of computers and men | Scoop.it
The world of quantitative biology is large, diffuse and sometimes overwhelming. It's hard sometimes to even figure out what someone means when they say "bioinformatics". This can make it hard to figure out what part of the field someone works in. One way to break it down is to describe bioinformatics as the building of…
Sandrine Palcy's insight:
A nice attempt to draw the line
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Building the national research infrastructure

SIB was mandated to play a pivotal role in the Swiss Personalized Health Network (SPHN), a national initiative launched in January 2017. Torsten Schwede
Sandrine Palcy's insight:
"The aim of the SPHN is clear: “to valorise the potential of medical, clinical and -omics data and achieve data interoperability among all relevant stakeholders”. Once established and extended to “all partners, including non-medical institutions and industry”1, the project should transform medical research and open the way for a new kind of medicine, altogether predictive, preventive, personalised and participative." https://blogs.fco.gov.uk/ewallace/2016/09/28/introducing-the-swiss-personalised-health-network/
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IBM lance une "collaboration mondiale" pour tirer profit de Watson dans l'imagerie médicale

IBM lance une "collaboration mondiale" pour tirer profit de Watson dans l'imagerie médicale | Modern Life Science: of computers and men | Scoop.it
La "collaboration mondiale" annoncée par IBM repose sur l'intégration du programme par des centres académiques de médecine, des fournisseurs de radiologie et des entreprises de technologies médicales afin de développer "l'imagerie cognitive".
Sandrine Palcy's insight:
Le programme Watson, d'IBM lancée en 2015, est un système informatique cognitif capable de tirer des connaissances à partir de l'analyse et du traitement de volumes importants de données, non forcément structurées.
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Eterna - Invent Medicine | a serious web-based video game

Eterna - Invent Medicine | a serious web-based video game | Modern Life Science: of computers and men | Scoop.it
"Researchers at the Stanford University School of Medicine are releasing a new version of a web-based video game that will harness the creative brain power of thousands of nonscientist players."
Sandrine Palcy's insight:
"The goal in coming months is for Eterna Medicine players to design a molecule that could help spur the development of a new tuberculosis test.
Tuberculosis infects a third of the world's population and kills about 1.5 million each year. Yet health organizations lack a simple-to-use blood test that can detect active infection in many patients, especially in remote villages.
Like a previous iteration of the Eterna game, the new version challenges players to build molecules of RNA with increasingly difficult-to-design shapes. " see article - http://phys.org/news/2016-05-video-game-tuberculosis.html
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DNAdigest: Empowering efficient access and sharing of Data.

DNAdigest: Empowering efficient access and sharing of Data. | Modern Life Science: of computers and men | Scoop.it
We do everything for the benefit of patients. We are a non-profit organisation empowering efficient access and sharing of genomics data.
Sandrine Palcy's insight:
"DNAdigest is a charity working to promote efficient sharing of human genomic data to improve the outcome of genomic research and diagnostics for the benefit of patients. Repositive, a social enterprise spin-out of DNAdigest, is building an online platform that indexes genomic data stored in repositories and thus enables researchers to search for and access a range of human genomic data sources through a single, easy-to-use interface, free of charge."  http://dx.doi.org/10.1371/journal.pbio.1002418 ;
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Sandrine Palcy's curator insight, April 18, 2016 11:02 AM
"DNAdigest is a charity working to promote efficient sharing of human genomic data to improve the outcome of genomic research and diagnostics for the benefit of patients. Repositive, a social enterprise spin-out of DNAdigest, is building an online platform that indexes genomic data stored in repositories and thus enables researchers to search for and access a range of human genomic data sources through a single, easy-to-use interface, free of charge."  http://dx.doi.org/10.1371/journal.pbio.1002418
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Home - OncoTrack

Home - OncoTrack | Modern Life Science: of computers and men | Scoop.it
OncoTrack, an international consortium of over 60 scientists, managed by Bayer HealthCare Pharmaceuticals and the Max Planck Institute for Molecular Genetics, has launched one of Europe’s largest collaborative academic-industry research projects to develop and assess novel approaches for identification of new markers for colon cancer.
Sandrine Palcy's insight:
 "The goal of OncoTrack is to identify and characterize biological markers that will help our understanding of the variable make-up of tumours and how this affects the way patients respond to treatment. "
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GRIOTE | Groupement de Recherche en Intégration de données Omics à Très grande Echelle

GRIOTE | Groupement de Recherche en Intégration de données Omics à Très grande Echelle | Modern Life Science: of computers and men | Scoop.it
"Communauté des chercheurs en bioinformatique des Pays de la Loire autour de la thématique de l’intégration des données biologiques à très grande échelle."
Sandrine Palcy's insight:
"Le Groupement de Recherche en Intégration de données Omics à Très grande Echelle est un projet fédérateur de la bioinformatique en région Pays de la Loire."
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Natural History Collections in the 21st Century | Natural museum are the original bioinformatics facilities

Natural History Collections in the 21st Century | Natural museum are the original bioinformatics facilities | Modern Life Science: of computers and men | Scoop.it

"Natural museums are the original bioinformatics facilities, exactly like the massive international online gene and protein databases that over the past 25 years have revolutionized the life sciences."

Sandrine Palcy's insight:
In this inspiring article, Dr. Herman Mays, an evolutionary biologist, takes us through a journey from the 19th century natural history collections to the modern computerized biology of the 21th century.
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Tackling Big Data Generation and Usage | GEN Magazine

Tackling Big Data Generation and Usage | GEN Magazine | Modern Life Science: of computers and men | Scoop.it

"Lack of consistent metadata and semantic mapping complicates the integration of data from different sources"

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A workflow for omic data analysis - OMICtools

A workflow for omic data analysis - OMICtools | Modern Life Science: of computers and men | Scoop.it
OMICtools is a workflow for genomic, transcriptomic, proteomic, and metabolomic data analysis. All tools have been classified by omic technologies ( NGS, microarray, PCR, MS, NMR ), applications and analytical steps.
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Open PHACTS

Open PHACTS | Modern Life Science: of computers and men | Scoop.it
Bringing together pharmacological data resources in an integrated, interoperable infrastructure
Sandrine Palcy's insight:

"The Open PHACTS Discovery Platform has been developed to reduce barriers to drug discovery in industry, academia and for small businesses. "

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Second Sight The Argus® II Retinal Prosthesis System

Second Sight The Argus® II Retinal Prosthesis System | Modern Life Science: of computers and men | Scoop.it
The Argus II Retinal Prosthesis System ("Argus II") is the world's first approved device intended to restore some functional vision for people suffering from blindness. Argus II is approved for use in the United States and the European Economic Area.
Sandrine Palcy's insight:

When computers give data back to humans

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Bioinformatics Courses | T-BioInfo in Education

Bioinformatics Courses | T-BioInfo in Education | Modern Life Science: of computers and men | Scoop.it
Click here to edit the content
Sandrine Palcy's insight:
Free Bioinformatics course : introductory bioinformatics, transcriptomics, metagenomics
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Impact of ELIXIR infrastructure

ELIXIR unites Europe’s leading life science organisations in managing and safeguarding the increasing volume of data being generated by publicly funded research

Sandrine Palcy's insight:
"ELIXIR is an intergovernmental organisation that brings together life science resources from across Europe. These resources include databases, software tools, training materials, cloud storage and supercomputers.

The goal of ELIXIR is to coordinate these resources so that they form a single infrastructure. This infrastructure makes it easier for scientists to find and share data, exchange expertise, and agree on best practices. Ultimately, it will help them gain new insights into how living organisms work.

 ELIXIR includes 21 member states and over 180 research organisations. It was founded in 2014, and is currently implementing its first five-year scientific programme."
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PhenoMeNal

PhenoMeNal | Modern Life Science: of computers and men | Scoop.it
PhenoMeNal (Phenome and Metabolome aNalysis) provides services enabling computation and analysis to improve the understanding of the causes and mechanisms underlying health, healthy ageing and diseases.
Sandrine Palcy's insight:
The PhenoMeNal project (Phenome and Metabolome aNalysis) is a comprehensive and standardised e-infrastructure that will support the data processing and analysis pipelines for molecular phenotype data generated by metabolomics applications.
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NCBO BioPortal

NCBO BioPortal | Modern Life Science: of computers and men | Scoop.it



BioPortal, the world’s most comprehensive repository of biomedical ontologies.

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Last Release: 4.27 (May 2016) - 515 ontologies
The National Center for Biomedical Ontology is one of the National Centers for Biomedical Computing supported by the NHGRI, the NHLBI, and the NIH Common Fund
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Sandrine Palcy's curator insight, May 18, 2016 10:18 AM
Last Release: 4.27 (May 2016) - 515 ontologies
The National Center for Biomedical Ontology is one of the National Centers for Biomedical Computing supported by the NHGRI, the NHLBI, and the NIH Common Fund
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RULBI

RULBI | Modern Life Science: of computers and men | Scoop.it
"Le Réseau des Utilisateurs de Logiciels de BioInformatique (RULBI) est depuis 2009 à l’interface entre les biologistes et les éditeurs de logiciels."
Sandrine Palcy's insight:
Enquête sur les besoins en logiciels de bioinformatique des laboratoires académiques réalisée par le RULBI sous l’égide d’Aviesan, Inserm, INSB, INRA (http://goo.gl/forms/7qkQzSCbKi)
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Stemformatics - Dataset Search

Stemformatics - Dataset Search | Modern Life Science: of computers and men | Scoop.it
Datasets from 294 public studies with 4774 human and 1616 mouse samples
Sandrine Palcy's insight:
"Stemformatics is not a substitute for good collaboration between bioinformaticians and stem cell biologists. We think of it as a stepping stone towards that collaboration."
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Sandrine Palcy's curator insight, April 15, 2016 10:51 AM
"Stemformatics is a collaboration between the stem cell and bioinformatics community."
Samuel Viana's curator insight, April 15, 2016 12:53 PM
As células tronco (em inglês, "stem cells") são muito importantes em biologia do desenvolvimento e na medicina restituitiva uma vez que são capazes de se diferenciar em qualquer tipo de célula no organismo. Num futuro não muito distante, seria possível produzir qualquer tipo de órgão em laboratório o que evitaria o eterno problema de encontrar um dador compatível aquando dos transplantes.
Este portal pretende ser uma porta de entrada para muitos estudos na área, integrando diversas bases de dados provenientes de estudos em feitos em humanos e ratos.
Won Gi Yoo's curator insight, August 31, 2016 5:40 AM
"Stemformatics is a collaboration between the stem cell and bioinformatics community."
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Workflow4Metabolomics 2.0 | workflow4metabolomics.org

Workflow4Metabolomics 2.0 | workflow4metabolomics.org | Modern Life Science: of computers and men | Scoop.it
Workflow4Metabolomics: A collaborative research infrastructure for computational metabolomics. Bioinformatics, http://dx.doi.org/10.1093/bioinformatics/btu813
Sandrine Palcy's insight:
"In addition to the Workflow4Metabolomics infrastructure for workflow management (in collaboration with IFB http://www.france-bioinformatique.fr/), MetaboHUB (http://www.metabohub.fr) has developed three additional online platforms which provide pivotal complementary functionalities for pathway metabolic network (MetExplore), spectra annotation and metabolite identification (PeakForest), and 1H-NMR spectra processing (NMRProcFlow)."
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All 2.3 Million Species Are Mapped into a Single Circle of Life

All 2.3 Million Species Are Mapped into a Single Circle of Life | Modern Life Science: of computers and men | Scoop.it
Lineages of all known species on Earth are finally pieced together
Sandrine Palcy's insight:
"Researchers from a dozen institutions recently completed a three-year effort to combine tens of thousands of trees into one diagram, most readable as a circle " (Database OpenTreeOfLife.org -http://www.opentreeoflife.org/)
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Sandrine Palcy's curator insight, March 9, 2016 6:49 AM
"Researchers from a dozen institutions recently completed a three-year effort to combine tens of thousands of trees into one diagram, most readable as a circle " (Database OpenTreeOfLife.org -http://www.opentreeoflife.org/)
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Giants in genomics: Janet Thornton

Giants in genomics: Janet Thornton | Modern Life Science: of computers and men | Scoop.it

Since October 2001, Professor Dame Janet Thornton has been director of the European Molecular Biology Laboratory European Bioinformatics Institute (EMBL-EBI), which shares the Wellcome Trust Genome Campus with the Wellcome Trust Sanger Institute.

Janet coordinated the ELIXIR preparatory phase (2006 – 2013) and leads the commission-funded BioMedBridges project, which clusters the biomolecular sciences research infrastructures to provide data bridges and ensure data interoperability between them. (https://erc.europa.eu/about-erc/organisation-and-working-groups/thornton-janet)



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Bio.tools : A portal to bioinformatics resources world-wide

Bio.tools : A portal to bioinformatics resources world-wide | Modern Life Science: of computers and men | Scoop.it

The Tools & Data Services Registry provides essential scientific and technical information about analytical tools and data services for bioinformatics. The registry is provided by a community effort coordinated by the Danish node of ELIXIR - the European infrastructure for biological information.

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Sandrine Palcy's curator insight, March 2, 2016 5:22 AM
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The value and impact of the European Bioinformatics Institute (EMBL-EBI) | independent evaluation

The value and impact of the European Bioinformatics Institute (EMBL-EBI) | independent evaluation | Modern Life Science: of computers and men | Scoop.it
What is open data worth? An independent analysis of EMBL-EBI provides fascinating insights.
Sandrine Palcy's insight:

An independent analysis of the value and impact of the European Bioinformatics Institute published by Charles Beagrie, Ltd. shows that for every £1 million invested, EMBL-EBI returns ~£20 million in value to the global scientific community

 

The executive summary and the full report are available online in printable format, at http://www.beagrie.com/EBI-impact-summary.pdf ; and http://www.beagrie.com/EBI-impact-report.pdf ;

 

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Biomedical sciences research infrastructures | BioMedBridges

Biomedical sciences research infrastructures | BioMedBridges | Modern Life Science: of computers and men | Scoop.it
Building data bridges from biology to medicine in Europe

BioMedBridges is a joint effort of twelve biomedical sciences research infrastructures on the ESFRI roadmap. (link is external) Together, the project partners develop the shared e-infrastructure—the technical bridges—to allow data integration in the biological, medical, translational and clinical domains and thus strengthen biomedical resources in Europe.

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