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Guest

About Guest:

Special guest appearance from Charles Darwin himself!

SEEK ID: https://demo.fairdomhub.org/people/320

Locations:  United Kingdom ,  Spain ,  Germany

Expertise: Transcriptomics, Proteomics, Microarray

Tools: Molecular Biology, Transcriptomics, Fermentation

ORCID: Not specified

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FAIRDOM training

This project contains materials for "Model management and result reproducibility" training at Managing Big Data tutorial on 5th of December 2016 in Potsdam.

The course will also explain how to build an effective Data Management strategy, needed if you apply for funds for a project.
The target group of this basic course are young scientists. This one day tutorial will give you insights in standard operation procedures (SOPs), experimental design, modelling design and a short introduction in SEEK.
...

Programme: This Project is not associated with a Programme

Public web page: http://sb-sciencemanagement.com/training/training/managing-big-data

SysMO DB

The main objectives of SysMO-DB are to: facilitate the web-based exchange of data between research groups within- and inter- consortia, and to provide an integrated platform for the dissemination of the results of the SysMO projects to the scientific community. We aim to devise a progressive and scalable solution to the data management needs of the SysMO initiative, that:

* facilitates and maximises the potential for data exchange between SysMO research groups;
* maximises the ‘shelf life’ and
...

Programme: SysMO

Public web page: http://www.sysmo-db.org/

Synthetic Biology Manchester Demo
No description specified

Programme: This Project is not associated with a Programme

Public web page: Not specified

Autonomous University of Barcelona

Country:  Spain

City: Not specified

Web page: Not specified

HITS gGmbH

Country:  Germany

City: Heidelberg

Web page: Not specified

School of Computer Science, University of Manchester

Country:  United Kingdom

City: Manchester

Web page: http://www.cs.manchester.ac.uk/

Frim
FAIRDOM training

The project aimed to build a virtual tomato fruit that enables the prediction of metabolite levels given genetic and environmental inputs, by an iterative process between laboratories which combine expertise in fruit biology, ecophysiology, theoretical and experimental biochemistry, and biotechnology.

Snapshots: No snapshots

Test Plant Investigation creation
SysMO DB
No description specified

Snapshots: No snapshots

The moth investigation
SysMO DB

Investigating moths

Snapshots: Snapshot 1, Snapshot 2, Snapshot 3

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Frim1
FAIRDOM training

About 580 tomato plants were grown in a greenhouse in the southwest of France (Sainte-Livrade sur Lot) during the summer of 2010 according to usual production practices.

Person responsible: Guest

Snapshots: No snapshots

The moth study
SysMO DB

Studying moths

Person responsible: Guest

Snapshots: No snapshots

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frim1_assay
FAIRDOM training
No description specified

Submitter: Guest

Assay type: Experimental Assay Type

Technology type: Technology Type

Snapshots: No snapshots

Glycolysis in Saccharomyces cerevisiae
SysMO DB

Glycolysis in Saccharomyces cerevisiae

Submitter: Guest

Biological problem addressed: Metabolism

Snapshots: No snapshots

Transcriptional profiling
SysMO DB

Assay for transcriptional profiling time course in yeast

Submitter: Guest

Assay type: Transcriptomics

Technology type: Microarray

Snapshots: No snapshots

Bupalus
SysMO DB

Find some moths

Submitter: Guest

Biological problem addressed: Model Analysis Type

Snapshots: No snapshots

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Frim1 - datapackage
FAIRDOM training

Set of metadata in datapackage format associated with data referenced by URL.

Creator: Guest

Submitter: Guest

Download
Agro Ontology
FAIRDOM training

Agriculture Ontology

Creator: Guest

Submitter: Guest

Download
demo data
SysMO DB
No description specified

Creator: Guest

Submitter: Guest

Download
Moth data
SysMO DB
No description specified

Creator: Guest

Submitter: Guest

Download
cchung testing a URL
SysMO DB
No description specified

Creator: Guest

Submitter: Guest

External Link
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test1
SysMO DB
No description specified

Creator: Guest

Submitter: Guest

Download
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Longitudinal anthropometry of children and adolescents using 3D-body scanning.
SysMO DB

Abstract (Expand)

3D-body scanning anthropometry is a suitable method for characterization of physiological development of children and adolescents, and for understanding onset and progression of disorders like overweight … and obesity. Here we present a novel body typing approach to describe and to interpret longitudinal 3D-body scanning data of more than 800 children and adolescents measured in up to four follow-ups in intervals of 1 year, referring to an age range between 6 and 18 years. We analyzed transitions between body types assigned to lower-, normal- and overweight participants upon development of children and adolescents. We found a virtually parallel development of the body types with only a few transitions between them. Body types of children and adolescents tend to conserve their weight category. 3D body scanning anthropometry in combination with body typing constitutes a novel option to investigate onset and progression of obesity in children.

Authors: H. Loeffler-Wirth, M. Vogel, T. Kirsten, F. Glock, T. Poulain, A. Korner, M. Loeffler, W. Kiess, H. Binder

Date Published: 14th Sep 2018

Publication Type: Not specified

Introducing Technical Aspects of Research Data Management in the Leipzig Health Atlas.
FAIRDOM training

Abstract (Expand)

Medical research is an active field in which a wide range of information is collected, collated, combined and analyzed. Essential results are reported in publications, but it is often problematic to … have the data (raw and processed), algorithms and tools associated with the publication available. The Leipzig Health Atlas (LHA) project has therefore set itself the goal of providing a repository for this purpose and enabling controlled access to it via a web-based portal. A data sharing concept in accordance to FAIR and OAIS is the basis for the processing and provision of data in the LHA. An IT architecture has been designed for this purpose. The paper presents essential aspects of the data sharing concept, the IT architecture and the methods used.

Authors: F. A. Meineke, M. Lobe, S. Staubert

Date Published: 22nd Apr 2018

Publication Type: Not specified

Characterization of the nasopharyngeal microbiota in health and during rhinovirus challenge
SysMO DB

Abstract (Expand)

BACKGROUND: The bacterial communities of the nasopharynx play an important role in upper respiratory tract infections (URTIs). Our study represents the first survey of the nasopharynx during a known, … controlled viral challenge. We aimed to gain a better understanding of the composition and dynamics of the nasopharyngeal microbiome during viral infection. METHODS: Rhinovirus illnesses were induced by self-inoculation using the finger to nose or eye natural transmission route in ten otherwise healthy young adults. Nasal lavage fluid samples (NLF) samples were collected at specific time points before, during, and following experimental rhinovirus inoculation. Bacterial DNA from each sample (N = 97 from 10 subjects) was subjected to 16S rRNA sequencing by amplifying the V1-V2 hypervariable region followed by sequencing using the 454-FLX platform. RESULTS: This survey of the nasopharyngeal microbiota revealed a highly complex microbial ecosystem. Taxonomic composition varied widely between subjects and between time points of the same subject. We also observed significantly higher diversity in not infected individuals compared to infected individuals. Two genera - Neisseria and Propionibacterium - differed significantly between infected and not infected individuals. Certain phyla, including Firmicutes, Actinobacteria, and Proteobacteria, were detected in all samples. CONCLUSIONS: Our results reveal the complex and diverse nature of the nasopharyngeal microbiota in both healthy and viral-challenged adults. Although some phyla were common to all samples, differences in levels of diversity and selected phyla were detected between infected and uninfected participants. Deeper, species-level metagenomic sequencing in a larger sample is warranted.

Authors: E. K. Allen, Firstname Lastname, J. O. Hendley, S. D. Turner, B. Winther, M. M. Sale

Date Published: 25th Jun 2014

Publication Type: Not specified

Evolving BioAssay Ontology (BAO): modularization, integration and applications
SysMO DB

Abstract

Not specified

Authors: Saminda Abeyruwan, Uma D Vempati, Hande Küçük-McGinty, Ubbo Visser, Amar Koleti, Ahsan Mir, Kunie Sakurai, Caty Chung, Joshua A Bittker, Paul A Clemons, Steve Brudz, Anosha Siripala, Arturo J Morales, Martin Romacker, David Twomey, Svetlana Bureeva, Vance Lemmon, Stephan C Schürer

Date Published: 2014

Publication Type: Not specified

The transcript catalogue of the short-lived fish Nothobranchius furzeri provides insights into age-dependent changes of mRNA levels
SysMO DB

Abstract (Expand)

The African annual fish Nothobranchius furzeri has over recent years been established as a model species for ageing-related studies. This is mainly based on its exceptionally short lifespan and the … presence of typical characteristics of vertebrate ageing. To substantiate its role as an alternative vertebrate ageing model, a transcript catalogue is needed, which can serve e.g. as basis for identifying ageing-related genes.

Authors: Andreas Petzold, Kathrin Reichwald, Marco Groth, Stefan Taudien, Nils Hartmann, Steffen Priebe, Dmitry Shagin, Christoph Englert, Matthias Platzer

Date Published: 16th Mar 2013

Publication Type: Not specified

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