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APERIM: Advanced bioinformatics platform for PERsonalised cancer IMmunotherapy

Objective

Cancer treatment platforms that involve the use of the adaptive immune system have demonstrated profound tumour regressions including complete cure. Importantly, technological advances in next-generation sequencing (NGS) allow for the first time the development of personalised cancer immunotherapies that target patient specific mutations. However, clinical application is currently hampered by specific bottlenecks in bioinformatics, which we aim to address in this proposal.

The overall objective of our trans-disciplinary network of leading experts in bioinformatics and cancer immunology is to develop an Advanced bioinformatics platform for PERrsonalised cancer IMmunotherapy (APERIM). Specifically we aim to develop:

1) database for the integration of NGS data, images of whole tissue slides of tumour sections, and clinical data. To enhance the usability and the data sharing we will use semantic web technologies, and will provide standardised interfaces to a set of analytical tools.

2) tools for automated quantification of tumour-infiltrating lymphocytes using whole tissue slide images and NGS data for patient stratification.

3) analytical pipeline for NGS-guided individualised cancer vaccines including crucial NGS data analysis and epitope selection components for the selection of vaccination targets.

4) a method for deriving T-cell receptor (TCR) sequences from NGS data and predicting TCR specificity.

We will achieve these aims using unique training and validation datasets available to the consortium. We will develop user-friendly software modules as well as analytical standard operating procedures for clinical use, and apply the bioinformatics platform in clinical settings. The bioinformatics platform will considerably accelerate the clinical translation and maximise the accessibility and utility of biomedical data in research and medicine.

Call for proposal

H2020-PHC-2014-2015

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Sub call

H2020-PHC-2014-two-stage

Coordinator

MEDIZINISCHE UNIVERSITAT INNSBRUCK
Net EU contribution
€ 420 540,00
Address
Christoph Probst Platz 1
6020 Innsbruck
Austria

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Region
Westösterreich Tirol Innsbruck
Activity type
Higher or Secondary Education Establishments
Other funding
€ 0,00

Participants (10)

CENTRO NACIONAL DE INVESTIGACIONES CARDIOVASCULARES CARLOS III (F.S.P.)
Spain
Net EU contribution
€ 185 262,50
Address
Calle Melchor Fernandez Almagro 3
28029 Madrid

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Region
Comunidad de Madrid Comunidad de Madrid Madrid
Activity type
Research Organisations
Other funding
€ 0,00
EBERHARD KARLS UNIVERSITAET TUEBINGEN
Germany
Net EU contribution
€ 247 500,00
Address
Geschwister-scholl-platz
72074 Tuebingen

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Region
Baden-Württemberg Tübingen Tübingen, Landkreis
Activity type
Higher or Secondary Education Establishments
Other funding
€ 0,00
UNIVERSITEIT UTRECHT
Netherlands
Net EU contribution
€ 249 000,00
Address
Heidelberglaan 8
3584 CS Utrecht

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Region
West-Nederland Utrecht Utrecht
Activity type
Higher or Secondary Education Establishments
Other funding
€ 0,00
Masarykova univerzita
Czechia
Net EU contribution
€ 135 250,00
Address
Zerotinovo Namesti 9
601 77 Brno

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Region
Jihovýchod Jihomoravský kraj
Activity type
Higher or Secondary Education Establishments
Other funding
€ 0,00
INSTITUT NATIONAL DE LA SANTE ET DE LA RECHERCHE MEDICALE
France
Net EU contribution
€ 258 000,00
Address
Rue De Tolbiac 101
75654 Paris

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Region
Ile-de-France Ile-de-France Paris
Activity type
Research Organisations
Other funding
€ 0,00
TRON - TRANSLATIONALE ONKOLOGIE ANDER UNIVERSITATSMEDIZIN DER JOHANNES GUTENBERG-UNIVERSITAT MAINZ GEMEINNUTZIGE GMBH
Germany
Net EU contribution
€ 347 250,00
Address
Freiligrathstrasse 12
55131 Mainz

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Region
Rheinland-Pfalz Rheinhessen-Pfalz Mainz, Kreisfreie Stadt
Activity type
Research Organisations
Other funding
€ 0,00
STICHTING HET NEDERLANDS KANKER INSTITUUT-ANTONI VAN LEEUWENHOEK ZIEKENHUIS
Netherlands
Net EU contribution
€ 279 000,00
Address
Plesmanlaan 121
1066 CX Amsterdam

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Region
West-Nederland Noord-Holland Groot-Amsterdam
Activity type
Research Organisations
Other funding
€ 0,00
ASTRAZENECA COMPUTATIONAL PATHOLOGY GMBH
Germany
Net EU contribution
€ 327 000,00
Address
Bernhard Wicki Str 5
80636 Munchen

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SME

The organization defined itself as SME (small and medium-sized enterprise) at the time the Grant Agreement was signed.

Yes
Region
Bayern Oberbayern München, Kreisfreie Stadt
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Other funding
€ 0,00
APTAIT GMBH
Germany
Net EU contribution
€ 307 125,00
Address
Leonhardistrasse 2e
86911 Diessen

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SME

The organization defined itself as SME (small and medium-sized enterprise) at the time the Grant Agreement was signed.

Yes
Region
Bayern Oberbayern Landsberg am Lech
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Other funding
€ 0,00
CENTER OF EXCELLENCE IN MEDICINE AND IT GMBH
Austria
Net EU contribution
€ 243 360,00
Address
Karl Kapferer Strasse 5
6020 Innsbruck

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SME

The organization defined itself as SME (small and medium-sized enterprise) at the time the Grant Agreement was signed.

Yes
Region
Westösterreich Tirol Innsbruck
Activity type
Private for-profit entities (excluding Higher or Secondary Education Establishments)
Other funding
€ 0,00