Opendata, web and dolomites

CellTrack SIGNED

Cellular Position Tracking Using DNA Origami Barcodes

Total Cost €

0

EC-Contrib. €

0

Partnership

0

Views

0

 CellTrack project word cloud

Explore the words cloud of the CellTrack project. It provides you a very rough idea of what is the project "CellTrack" about.

mapping    exact    previously    cloning    dependencies    locations    2015    resolution    deep    salt    data    differentiated    unknown    hybridization    made    fluorophores    small    patterns    523    types    cells    nucleotides    skin    completely    cancers    tissue    regeneration    al    opens    issue    expose    origami    single    molecular    technique    de    expression    intestine    positions    effect    origin    combinatorial    transcriptomics    benson    crypt    nature    biology    nano    resolved    hair    create    et    sequences    structures    creation    collected    organ    time    spatiotemporal    turning    folding    perform    progenitors    stable    follicle    readable    imaging    transcriptome    physiological    position    dna    441    newly    differentiation    strategy    combined    display    cancer    uncover    conjugated    procedure    theme    interdependencies    spatial    paths    points    mrna    multiple    scaffold    gut    developmental    barcodes    sequencing    biological    optical    vivo    mouse    stem    samples    proliferating    cell    organs    dimensional   

Project "CellTrack" data sheet

The following table provides information about the project.

Coordinator
KAROLINSKA INSTITUTET 

Organization address
address: Nobels Vag 5
city: STOCKHOLM
postcode: 17177
website: www.ki.se

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Sweden [SE]
 Total cost 1˙923˙262 €
 EC max contribution 1˙923˙262 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2016-COG
 Funding Scheme ERC-COG
 Starting year 2017
 Duration (year-month-day) from 2017-08-01   to  2022-07-31

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    KAROLINSKA INSTITUTET SE (STOCKHOLM) coordinator 1˙923˙262.00

Map

 Project objective

The research I propose here will provide an enabling technology; spatially resolved transcriptomics, to address important problems in cell- and developmental-biology, in particular: How are stem cells in the skin and gut proliferating without turning into cancers? How are differentiated cells related, in their transcriptome and spatial positions, to their progenitors?

To investigate these problems on a molecular level and open up paths to find completely new spatiotemporal interdependencies in complex biological systems, I propose to use our newly developed DNA-origami strategy (Benson et al, Nature, 523 p. 441 (2015) ), combined with a combinatorial cloning technique, to build a new method for deep mRNA sequencing of tissue with single-cell resolution. These new types of origami are stable in physiological salt conditions and opens up their use in in-vivo applications.

In DNA-origami we can control the exact spatial position of all nucleotides. By folding the scaffold to display sequences for hybridization of fluorophores conjugated to DNA, we can create optical nano-barcodes. By using structures made out of DNA, the patterns of the optical barcodes will be readable both by imaging and by sequencing, thus enabling the creation of a mapping between cell locations in an organ and the mRNA expression of those cells.

We will use the method to perform spatially resolved transcriptomics in small organs: the mouse hair follicle, and small intestine crypt, and also perform the procedure for multiple samples collected at different time points. This will enable a high-dimensional data analysis that most likely will expose previously unknown dependencies that would provide completely new knowledge about how these biological systems work. By studying these systems, we will uncover much more information on how stem cells contribute to regeneration, the issue of de-differentiation that is a common theme in these organs and the effect this might have on the origin of cancer.

 Publications

year authors and title journal last update
List of publications.
2018 Erik Benson, Abdulmelik Mohammed, Daniel Rayneau-Kirkhope, Andreas Gådin, Pekka Orponen, Björn Högberg
Effects of Design Choices on the Stiffness of Wireframe DNA Origami Structures
published pages: 9291-9299, ISSN: 1936-0851, DOI: 10.1021/acsnano.8b04148
ACS Nano 12/9 2019-08-30

Are you the coordinator (or a participant) of this project? Plaese send me more information about the "CELLTRACK" project.

For instance: the website url (it has not provided by EU-opendata yet), the logo, a more detailed description of the project (in plain text as a rtf file or a word file), some pictures (as picture files, not embedded into any word file), twitter account, linkedin page, etc.

Send me an  email (fabio@fabiodisconzi.com) and I put them in your project's page as son as possible.

Thanks. And then put a link of this page into your project's website.

The information about "CELLTRACK" are provided by the European Opendata Portal: CORDIS opendata.

More projects from the same programme (H2020-EU.1.1.)

PATRES-MDS (2019)

Pathogenesis and treatment of splicing factor mutant myelodysplastic syndromes

Read More  

Neurovulnerability (2019)

Molecular mechanisms underlying selective neuronal death in motor neuron diseases

Read More  

PROGRESS (2019)

The Enemy of the Good: Towards a Theory of Moral Progress

Read More