Results & Downloads



Paper published in Bioinformatics

Paper entitled: BIODICA: a computational environment for Independent Component Analysis of omics data

April 06, 2022
Biotechnology & Health

Paper published in Bioinformatics

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iPC website

MEMS Piston Mirror Arrays for Computer Generated Holography

This paper was published at the SPIE Photonics West 2022 on 1st March 2022.

April 06, 2022
Circuits & Systems

MEMS Piston Mirror Arrays for Computer Generated Holography

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realholo website

Challenges of monolithic MEMS-on-CMOS integration for spatial light modulators

This paper was published at the SPIE Opto 2021 on 5th March 2021.

April 06, 2022
Circuits & Systems

Challenges of monolithic MEMS-on-CMOS integration for spatial light modulators

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realholo website

Paper published in Nature Communication

Paper entitled: A single-cell atlas of breast cancer cell lines to study tumour 2 heterogeneity and drug response

March 31, 2022
Biotechnology & Health

Paper published in Nature Communication

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iPC website

Paper in ‘IEEE Security and Privacy Workshops (SPW)’

SHEPHERD, Carlton, MARKANTONAKIS, Konstantinos, et JALOYAN, Georges-Axel: “LIRA-V: Lightweight remote attestation for constrained RISC-V devices”

February 23, 2022
Security & Safety

Paper in ‘IEEE Security and Privacy Workshops (SPW)’

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exfiles website

Paper in ‘Computers & Security’

SHEPHERD, Carlton, MARKANTONAKIS, Konstantinos, VAN HEIJNINGEN, Nico, et al: “Physical fault injection and side-channel attacks on mobile devices: A comprehensive analysis”

February 22, 2022
Security & Safety

Paper in ‘Computers & Security’

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exfiles website

Academic article

Location-based Initial Access for Wireless Power Transfer with Physically Large Arrays – academic article by Benjamin J. B. Deutschmann, Thomas Wilding, Erik G. Larsson and Klaus Witrisal.

February 22, 2022
Signals & Communication

Academic article

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reindeer website

Paper in ‘Forensic Science International: Digital Investigation’

FUKAMI, Aya, STOYKOVA, Radina, et GERADTS, Zeno: A new model for forensic data extraction from encrypted mobile devices

February 21, 2022
Security & Safety

Paper in ‘Forensic Science International: Digital Investigation’

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exfiles website

MEMS Spatial Light Modulators for Real Holographic 3D Displays

This paper was published at the MikroSystemTechnik Congress 2021 on 8-10th November 2021.

February 16, 2022
Circuits & Systems

MEMS Spatial Light Modulators for Real Holographic 3D Displays

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realholo website

Paper published in frontiers in Molecular Bioscience

Paper entitled: „Modeling Progression of Single Cell Populations Through the Cell Cycle as a Sequence of Switches“

February 01, 2022
Biotechnology & Health

Paper published in frontiers in Molecular Bioscience

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iPC website

D2.1 “Initial assessment of architectures and hardware resources for a RadioWeaves infrastructure”

D2.1 provides an initial assessment of the RadioWeaves infrastructure, developed in WP2 of REINDEER. Taking the description of RadioWeaves in D1.1 and the use cases and KPIs defined therein, as a starting point, a first version of the building blocks of the infrastructure are presented, together with new terminology. Architecture and topology are introduced together with a quantitative and qualitative analysis of high-level requirements on a RadioWeaves infrastructure, setting the scope for more detailed investigations and design.

January 31, 2022
Signals & Communication

D2.1 “Initial assessment of architectures and hardware resources for a RadioWeaves infrastructure”

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reindeer website

D3.1 “Analytical Performance Metrics and Physical-Layer Solutions”

D3.1 develops a framework for physical-layer performance evaluation of RadioWeaves. Specifically, an effective-SINR abstraction model is developed and shown to be accurate and highly efficient in terms of computational complexity. Furthermore, this document evaluates complexity of existing algorithms in terms of computational load and front-haul signaling for different cell-free topologies considered in the literature. It also proposes efficient algorithms for distributed MIMO processing of RadioWeaves with centralized and decentralized approaches.

January 26, 2022
Signals & Communication

D3.1 “Analytical Performance Metrics and Physical-Layer Solutions”

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reindeer website

Paper published in iScience

Paper entitled: “Machine learning for multi-omics data integration in cancer“

January 22, 2022
Biotechnology & Health

Paper published in iScience

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iPC website

Academic article

A Multi-band Solution for Interacting with Energy-Neutral Devices – an academic article by Chesney Buyle, Bert Cox, Liesbet Van der Perre and Lieven De Strycker.

December 16, 2021
Signals & Communication

Academic article

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reindeer website

Academic article

Reciprocity calibration of Distributed Massive MIMO Access Points for Coherent Operation – academic article by Joao Vieira and Erik G. Larsson.

December 13, 2021
Signals & Communication

Academic article

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reindeer website

Academic article

BeamSync: Over-The-Air Carrier Synchronization in Distributed RadioWeaves – an academic article by Unnikrishnan Kunnath Ganesan, Rimalapudi Sarvendranath and Erik G. Larsson.

December 01, 2021
Signals & Communication

Academic article

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reindeer website

D3.3 Integration of INtERAcT, MelanomaMine and LimTox and application to biomedical publications on paediatric cancers

This deliverable reports on the integration of INtERAcT and the implemented text mining workflow. The workflow was developed to adapt LimTox and MelanomaMine to pediatric tumor abstracts from PubMed and relies on INtERAcT in its downstream component of inferring molecular associations between entities extracted from unstructured text.

November 30, 2021
Biotechnology & Health

D3.3 Integration of INtERAcT, MelanomaMine and LimTox and application to biomedical publications on paediatric cancers

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iPC website

D1.3 Synthetic data for testing and training patient, cancer, and drug models

Synthetic data generation is emerging as an important solution for precision medicine. Therefore, an explainable Variational AutoEncoder (VAE) model is developed for synthetic transcriptomics data generation in medulloblastoma. The model can be used to complement and interpolate available data with synthetic instances. It is also transparent as it is able to match the learned latent variables with unique gene expression patterns. The model can also be adapted to other pediatric cancers and the resulting synthetic datasets used to test and train patient, cancer, and drug models in other work packages of the iPC project.

November 30, 2021
Biotechnology & Health

D1.3 Synthetic data for testing and training patient, cancer, and drug models

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iPC website

D1.3 “Dissemination report on component and system specifications”

This document provides an overview of the motivation and objectives of REALHOLO in combination with desired specifications and corresponding challenges. An outlook beyond REALHOLO is given with focus on opportunities arising from future availability of the new component and potential further steps to proper commercialization.

November 29, 2021
Circuits & Systems

D1.3 “Dissemination report on component and system specifications”

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realholo website

Paper published in BMC Bioinformatics

Paper entitled: “Emulating complex simulations by machine learning methods (SP)”

November 12, 2021
Biotechnology & Health

Paper published in BMC Bioinformatics

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iPC website

Paper will be presented at SPIE Medical Imaging

Paper entitled: “Segmentation of Multiple Myeloma Plasma Cells in Microscopy Images with Noisy Labels” (Presentation)

November 08, 2021
Biotechnology & Health

Paper will be presented at SPIE Medical Imaging

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iPC website

Paper published in bioRxiv

Paper entitled: “Loss of p16INK4a in neuroblastoma cells induces shift to an immature state with mesenchymal characteristics and increases sensitivity to EGFR inhibitors”

October 28, 2021
Biotechnology & Health

Paper published in bioRxiv

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iPC website

D1.1 “Use case-driven specifications and technical requirements and initial channel model”

D1.1 provides an inventory of interactive use case specifications, representative deployment scenarios, technical requirements and KPIs for the four focus domains. D1.1 includes the initial channel model based on existing measurements and models. It reports on the particular investigation of the origin of latency in wireless applications.

October 11, 2021
Signals & Communication

D1.1 “Use case-driven specifications and technical requirements and initial channel model”

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reindeer website

First newsletter now available

The first REINDEER newsletter is now available for download. In this edition, we present a message from the coordinator, all workpackages in the project, a listing of past and upcoming events and a look at all recent media releases. Please have a look and of course, share within your network.

October 04, 2021
Signals & Communication

First newsletter now available

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reindeer website

Paper published in BMC Bioinformatics

Paper entitled “DECONbench: a benchmarking platform dedicated to deconvolution methods for tumor heterogeneity quantification”

October 02, 2021
Biotechnology & Health

Paper published in BMC Bioinformatics

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iPC website

EXFILES newsletter #1

September 22, 2021
Security & Safety

EXFILES newsletter #1

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exfiles website

Academic article

Partial Interference Suppression in Massive MIMO Systems: Taxonomy and Experimental Analysis – an academic article by Andrea P. Guevara, Cheng-Ming Chen, Alessandro Chiumento and Sofie Pollin.

September 15, 2021
Signals & Communication

Academic article

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reindeer website

Paper published in Bioinformatics

Paper entitled: “FUNKI: Interactive functional footprint-based analysis of omics data”

September 13, 2021
Biotechnology & Health

Paper published in Bioinformatics

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iPC website

Paper published in the JOURNAL OF LIGHTWAVE TECHNOLOGY (JTL)

Paper entitled “An MPSK Millimeter-Wave Point-to-Point Link With Radio Over Fiber Synchronous Baseband Receiver”.

September 08, 2021
Circuits & Systems

Paper published in the JOURNAL OF LIGHTWAVE TECHNOLOGY (JTL)

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car2tera website

Paper published in the Frontiers in Immunology

Paper entitled: “From Infection to Immunity: Understanding the Response to SARS-CoV2 Through In-Silico Modeling (SP)“

September 07, 2021
Biotechnology & Health

Paper published in the Frontiers in Immunology

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iPC website

REALHOLO Newsletter Issue 01

The 1st REALHOLO newsletter has been released, which is focused on the results of the first 6 project months.

September 01, 2021
Circuits & Systems

REALHOLO Newsletter Issue 01

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realholo website

Paper published in the IOP Science (IOP Publishing)

Paper entitled “Case studies of electrical characterisation of graphene by terahertz time-domain spectroscopy”.

August 25, 2021
Circuits & Systems

Paper published in the IOP Science (IOP Publishing)

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car2tera website

Paper published in Symmetry 2021

Paper entitled: “The Multiple Dimensions of Networks in Cancer: A Perspective”

August 25, 2021
Biotechnology & Health

Paper published in Symmetry 2021

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iPC website

Paper published in the Elsevier Journal

Paper entitled “Applications of single-cell and bulk RNA sequencing in onco-immunology”.

August 24, 2021
Biotechnology & Health

Paper published in the Elsevier Journal

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iPC website

Academic article

A Primer on Techtile: An R&D Testbed for Distributed Communication, Sensing and Positioning – an academic article by Gilles Callebaut, Jarne Van Mulder, Geoffrey Ottoy and Liesbet Van der Perre.

August 10, 2021
Signals & Communication

Academic article

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reindeer website

Paper published in Advanced Science

Paper entitled: “CHAF1A Blocks Neuronal Differentiation and Promotes Neuroblastoma Oncogenesis via Metabolic Reprogramming”

August 08, 2021
Biotechnology & Health

Paper published in Advanced Science

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iPC website

Paper published in the Special Issue Hepatoblastoma and Other Pediatric Liver Tumors

Paper entitled “Bridging molecular basis, prognosis, and treatment of pediatric liver tumors”.

August 06, 2021
Biotechnology & Health

Paper published in the Special Issue Hepatoblastoma and Other Pediatric Liver Tumors

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iPC website

Paper published in the Current Protocols in Bioinformatics.

Paper entitled “PIONEER: Pipeline for Generating High‐Quality Spectral Libraries for DIA‐MS Data”.

August 06, 2021
Biotechnology & Health

Paper published in the Current Protocols in Bioinformatics.

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iPC website

Paper published in the Journal for ImmunoTherapy of Cancer

Paper entitled “Identification and validation of viral antigens sharing sequence and structural homology with tumor-associated antigens (TAAs).”

August 06, 2021
Biotechnology & Health

Paper published in the Journal for ImmunoTherapy of Cancer

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iPC website

Paper presented in the “Computer Vision for Microscopy Image Analysis (CVMI)” workshop

Paper entitled “Unsupervised Detection of Cancerous Regions in Histology Imagery using Image-to-Image Translation”

August 04, 2021
Biotechnology & Health

Paper presented in the “Computer Vision for Microscopy Image Analysis (CVMI)” workshop

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iPC website

Paper published in Bioinformatics

Paper entitled: “Improved identification and quantification of peptides in mass spectrometry data via chemical and random additive noise elimination (CRANE)”

July 29, 2021
Biotechnology & Health

Paper published in Bioinformatics

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iPC website

Paper published in Physics of Life Reviews: pp. 132-134

Paper entiteld: „Adaptation through the lense of single-cell multi-omics data Comment on “Dynamic and thermodynamic models of adaptation” by A.N. Gorban et al.”

July 20, 2021
Biotechnology & Health

Paper published in Physics of Life Reviews: pp. 132-134

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iPC website

Paper published in the BIORXIV

Paper entitled “Hepatoblastomas with carcinoma features represent a biological spectrum of aggressive neoplasms in children and young adults”.

July 16, 2021
Biotechnology & Health

Paper published in the BIORXIV

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iPC website

Paper published in Bioinformatics

Paper entitled: “On the feasibility of deep learning applications using raw mass spectrometry data”

July 12, 2021
Biotechnology & Health

Paper published in Bioinformatics

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iPC website

Paper published in Bioinformatics

Paper entitled: “TITAN: T-cell receptor specificity prediction with bimodal attention networks“

July 12, 2021
Biotechnology & Health

Paper published in Bioinformatics

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iPC website

Paper published in NATURE COMMUNICATIONS

Paper entitled: “Restoration of the molecular clock is tumor suppressive in neuroblastoma”

June 28, 2021
Biotechnology & Health

Paper published in NATURE COMMUNICATIONS

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iPC website

Paper published in Bioinformatics

Paper entitled: “SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems”

June 24, 2021
Biotechnology & Health

Paper published in Bioinformatics

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iPC website

Paper published in the Proceedings of International Conference on Machine Learning (ICML) 2021

A new network inference algorithm from TUDA with iPC acknowledge was published in the ICML 2021. Paper entitled “Active Learning of Continuous-Time Bayesian Networks Through Interventions”.

June 23, 2021
Biotechnology & Health

Paper published in the Proceedings of International Conference on Machine Learning (ICML) 2021

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iPC website

Paper published in Nature Biotechnology

Paper entitled: “The RNA Atlas expands the catalog of human non-coding RNAs”

June 17, 2021
Biotechnology & Health

Paper published in Nature Biotechnology

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iPC website

D4.2 An interactive online atlas of interconnected network maps based on the NaviCell platform

With the development of the NaviCell 3.0 web server, there is a complete and automated web-based infrastructure for hosting molecular maps, patient similarity network maps, and multi-omics datasets for the project. The NaviCell platform supports molecular map navigation and exploration using the Google maps™ engine. The logic of navigation is taken from Google maps. This NaviCell 3.0 web-server is freely available and several step-by-step tutorials are accessible.

June 07, 2021
Biotechnology & Health

D4.2 An interactive online atlas of interconnected network maps based on the NaviCell platform

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iPC website

D7.1 Application of software enabling computational deconvolution of bulk RNA-sequencing data to immune cell profiles of patient samples

Computational deconvolution of bulk RNA-sequencing data to infer cell type composition of a sample is challenging. Benchmarking of various computational deconvolution tools revealed various data processing parameters that impact deconvolution accuracy and revealed the importance of a complete reference matrix. As a complete reference matrix is often not available, an algorithm was designed that can handle missing cell types. This algorithm can be applied to establish the immune cell repertoire of primary tumor biopsies without prior knowledge of the full spectrum of cell types in the biopsy.

June 02, 2021
Biotechnology & Health

D7.1 Application of software enabling computational deconvolution of bulk RNA-sequencing data to immune cell profiles of patient samples

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iPC website

D3.1 Identification of important regulatory elements using multi-level matrix factorization approaches

D3.1 describes the techniques for dimensionality reduction used in iPC and their application to a selection of cohorts (at different omics levels) as well as a meta-analysis of the four solid tumor types of interest. The goal of the deliverable is to provide a list of pathways and biological functions having a key role in multiple paediatric cancers.

June 02, 2021
Biotechnology & Health

D3.1 Identification of important regulatory elements using multi-level matrix factorization approaches

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iPC website

D3.2 Adaptation of MelanomaMine and LiMTox to the analysis of paediatric cancers and application to biomedical publications on paediatric cancers

The paper reports on the implementation of the iPC text mining workflow and three use cases for extracting biomedical information from large volumes. The workflow builds on the general framework of two text mining tools, LimTox and MelanomaMine. These tools will be used in the framework of the iPC project but also beyond, having a clear impact in the research community.

May 31, 2021
Biotechnology & Health

D3.2 Adaptation of MelanomaMine and LiMTox to the analysis of paediatric cancers and application to biomedical publications on paediatric cancers

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iPC website

D8.1 Data-driven model for molecular targets and drug repositioning

This deliverable provides a detailed overview of the proposed computational tool for predicting patient-specific drugs with potential therapeutic benefit for paediatric cancer treatment and provides, for example, evidence for the goodness of the model in predicting such patient-specific drugs.

May 28, 2021
Biotechnology & Health

D8.1 Data-driven model for molecular targets and drug repositioning

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iPC website

D2.3 Recommended metadata standards and portal prototype

The iPC project aims to ensure interoperability of data between different resources, so the platform must enforce principles and well-defined standards for data accessibility, usability, and registration. This deliverable provides an overview of the different approaches to representing metadata within the iPC Platform, and the efforts to integrate and leverage them within the iPC Catalog and the overall iPC Central Computational and Data Platform to enable meaningful management of research data.

May 28, 2021
Biotechnology & Health

D2.3 Recommended metadata standards and portal prototype

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iPC website

D1.2 Collection of high-quality clinical and molecular paediatric cancer datasets as well as other tumour types

In this deliverable, demographic, clinical, and molecular profiles were collected for several pediatric and adult tumors. In addition, the focus here is on collections of single cell profiles of high risk cancers. The datasets will be used to evaluate the effects of treatments and perturbations on cancer cells, build models, and provide information on deciphering regulatory interactions. These data will allow characterization of cancer cell types that predict treatment outcome, as well as cell types that are resistant to therapies.

May 28, 2021
Biotechnology & Health

D1.2 Collection of high-quality clinical and molecular paediatric cancer datasets as well as other tumour types

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iPC website

“Estimage: a webserver hub for the computation of methylation age (SP)”

Article published in the Nucleic Acids Research Journal.

May 26, 2021
Biotechnology & Health

“Estimage: a webserver hub for the computation of methylation age (SP)”

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iPC website

“Artificial Intelligence in Cancer Research: learning at different levels of data granularity”

Article published in the Molecular Oncology Journal, Volume 15, Issue 4 Pages 817-829.

April 30, 2021
Biotechnology & Health

“Artificial Intelligence in Cancer Research: learning at different levels of data granularity”

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iPC website

Article published in the Cancer Cell Journal, Volume 39, Issue 6, P 810-826

Article entitled “STAG2 mutations alter CTCF-anchored loop extrusion, reduce cis-regulatory interactions and EWSR1-FLI1 activity in Ewing sarcoma”.

April 29, 2021
Biotechnology & Health

Article published in the Cancer Cell Journal, Volume 39, Issue 6, P 810-826

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iPC website

“The multilayer community structure of medulloblastoma”

Article published in the iScience Journal, Volume 24, ISSUE 4 by partner Barcelona Supercomputing Center (BSC).

March 26, 2021
Biotechnology & Health

“The multilayer community structure of medulloblastoma”

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iPC website

Paper published in Machine Learning: Science and Technology

Paper entitled: “Data-driven molecular design for discovery and synthesis of novel ligands: a case study on SARS-CoV-2”

March 25, 2021
Biotechnology & Health

Paper published in Machine Learning: Science and Technology

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iPC website

Publication in the Journal of Medical Internet Research (JMIR).

Article entitled “Artificial Intelligence–Aided Precision Medicine for COVID-19: Strategic Areas of Research and Development”.

Published in the JMIR, Volume 23 Issue 3 by partner Barcelona Supercomputing Center (BSC).

March 12, 2021
Biotechnology & Health

Publication in the Journal of Medical Internet Research (JMIR).

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iPC website

“Tumor to normal single-cell mRNA comparisons reveal a pan-neuroblastoma cancer cell”

Article published in the Science Advances Journal, Vol. 7, no. 6.

February 22, 2021
Biotechnology & Health

“Tumor to normal single-cell mRNA comparisons reveal a pan-neuroblastoma cancer cell”

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iPC website

Paper published in Scientifc Reports

Paper entitled: “MDM4 inhibition: a novel therapeutic strategy to reactivate p53 in hepatoblastoma”

February 03, 2021
Biotechnology & Health

Paper published in Scientifc Reports

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iPC website

Project Leaflet

The official leaflet of the H2020 project “REALHOLO” is available, containing project information, mission, vision and goals of the project.

February 01, 2021
Circuits & Systems

Project Leaflet

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realholo website

Announcement letter

January 29, 2021
Circuits & Systems

Announcement letter

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realholo website

Paper published in the International Joint Conference on Neural Networks-2021 (IJCNN2021)

Paper entitled: “Clinical trajectories estimated from bulk tumoral molecular proles using elastic principal trees”

January 27, 2021
Biotechnology & Health

Paper published in the International Joint Conference on Neural Networks-2021 (IJCNN2021)

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iPC website

Paper published and presented at the European Microwave Conference

The post Paper published and presented at the European Microwave Conference appeared first on Car2TERA - H2020 EU Project.

January 21, 2021
Circuits & Systems

Paper published and presented at the European Microwave Conference

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car2tera website

D4.1 Building of cancer type-specific multi-layered molecular and patient similarity networks

iPC uses network inference techniques and applies a selection of pediatric patient cohorts at different omic levels. Networks will be generated, for example, for the generation of molecular patient networks to be used in downstream project activities involving the use of networks.

January 15, 2021
Biotechnology & Health

D4.1 Building of cancer type-specific multi-layered molecular and patient similarity networks

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iPC website

“Benchmarking of cell type deconvolution pipelines for transcriptomics data”

Article published in “Nature Communications” (2020, 11:5650) by partner UGENT

December 10, 2020
Biotechnology & Health

“Benchmarking of cell type deconvolution pipelines for transcriptomics data”

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iPC website

“FPGA Accelerated Analysis of Boolean Gene Regulatory Networks”

Article published in the IEEE/ACM Transactions on Computational Biology and Bioinformatics ( Volume: 17, Issue: 6)

November 22, 2020
Biotechnology & Health

“FPGA Accelerated Analysis of Boolean Gene Regulatory Networks”

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iPC website

“COSIFER: a Python package for the consensus inference of molecular interaction networks”

Article published in the Bioinformatics Journal.

November 22, 2020
Biotechnology & Health

“COSIFER: a Python package for the consensus inference of molecular interaction networks”

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iPC website

Paper published in Briefings in Bioinformatics

Paper entitled: “Deep learning in systems medicine”

November 16, 2020
Biotechnology & Health

Paper published in Briefings in Bioinformatics

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iPC website

IEEE Microwave and Wireless Components Letters Paper

Chalmers got a paper accepted at IEEE Microwave and Wireless Components Letters. The title is “A D-band Dual-Mode Dynamic Frequency Divider in 130nm SiGe Technology”

October 30, 2020
Circuits & Systems

IEEE Microwave and Wireless Components Letters Paper

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car2tera website

D2.2 “Initial infrastructure framework”

An initial demonstrator of the iPC infrastructure is reviewed. The platform’s architecture is based on modules, which allow parallel developments and integration of different open source-based software components. This allows us to leverage other efforts and contribute towards its sustainability and maintainability. The release of a minimum viable platform is allowing us to capture early feedback from researchers at iPC.

October 14, 2020
Biotechnology & Health

D2.2 “Initial infrastructure framework”

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iPC website

“Designing a Network Proximity-Based Drug Repurposing Strategy for COVID-19”

The ongoing COVID-19 pandemic still requires fast and effective efforts from all fronts, including epidemiology, clinical practice, molecular medicine, and pharmacology. 

October 08, 2020
Biotechnology & Health

“Designing a Network Proximity-Based Drug Repurposing Strategy for COVID-19”

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iPC website

Paper published in Frontiers in Cell and Developmental Biology.

Paper entitled: “Designing a Network Proximity-Based Drug Repurposing Strategy for COVID-19”

October 06, 2020
Biotechnology & Health

Paper published in Frontiers in Cell and Developmental Biology.

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iPC website

EXFILES leaflet

October 02, 2020
Security & Safety

EXFILES leaflet

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exfiles website

Journal article in MICCAI 2020

XLAB contributed to 23rd International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2020) with an article about anomaly detection in visual data.

October 01, 2020
Biotechnology & Health

Journal article in MICCAI 2020

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iPC website

EXFILES press release

EXFILES_Press_Release

September 04, 2020
Security & Safety

EXFILES press release

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exfiles website

“Inferring clonal composition from multiple tumor biopsies”

Knowledge about the clonal evolution of a tumor can help to interpret the function of its genetic alterations by identifying initiating events and events that contribute to the selective advantage of proliferative, metastatic, and drug-resistant subclones. 

September 03, 2020
Biotechnology & Health

“Inferring clonal composition from multiple tumor biopsies”

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iPC website

ICML 2020 paper

TUDA submitted a manuscript about continous-time Bayesian networks to the 37th International Conference on Machine Learning.

July 02, 2020
Biotechnology & Health

ICML 2020 paper

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iPC website

Paper presented at International Conference of Machine Learning 2020 (ICML 2020)

Paper entitled: “Continuous-Time Bayesian Networks with Clocks (Conference Proceedings/Presentation)”

July 01, 2020
Biotechnology & Health

Paper presented at International Conference of Machine Learning 2020 (ICML 2020)

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iPC website

D1.1 “Collection of public molecular and clinical data”

The development of iPC predictive models for paediatric cancer genesis, progression, and response to therapies, as well as patient response to therapy, requires a vast quantity of molecular and clinical training data. In this deliverable, we have assembled a collection of these data to enable model construction and testing.

July 01, 2020
Biotechnology & Health

D1.1 “Collection of public molecular and clinical data”

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iPC website

Paper published in BMC Bioinformatics

Paper entitled: “Methylation data imputation performances under different representations and missingness patterns”

June 29, 2020
Biotechnology & Health

Paper published in BMC Bioinformatics

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iPC website

Publication in Nucleic Acids Research

IBM published a new paper about their web service “PaccMann”.

May 13, 2020
Biotechnology & Health

Publication in Nucleic Acids Research

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iPC website

Publication in Cancers 2020

“Comprehensive Map of the Regulated Cell Death Signaling Network” in Issue 990 of the “Cancers” Journal by CURIE.

April 17, 2020
Biotechnology & Health

Publication in Cancers 2020

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iPC website

AAAI 2020 paper

TUDA contributed to the 34th Conference on Artificial Intelligence with the paper “A Variational Perturbative Approach to Planning in Graph-Based Markov Decision Processes”.

April 03, 2020
Biotechnology & Health

AAAI 2020 paper

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iPC website

Ewing sarcoma book

CURIE contributed to the Springer book “Ewing Sarcoma – Methods and Protocols, Springer”.

April 01, 2020
Biotechnology & Health

Ewing sarcoma book

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iPC website

Article in Nanotechnology

The journal article “Wafer-scale graphene quality assessment using micro four-point probe mapping” is now available on Zenodo.

March 31, 2020
Circuits & Systems

Article in Nanotechnology

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car2tera website

Publication in Journal of Hepatology

IGTP contributed with a paper entitled “Epigenetic footprint enables molecular risk stratification of hepatoblastoma with clinical implications”.

March 30, 2020
Biotechnology & Health

Publication in Journal of Hepatology

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iPC website

ROSUS 2020 paper

XLAB published a paper about “Visual Anomaly Detection in Domains with Limited Amount of Labeled Data”.

March 19, 2020
Biotechnology & Health

ROSUS 2020 paper

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iPC website

Car2TERA poster

This project poster is used to disseminate & communicate the project`s idea, solution and impact on upcoming conferences and workshops.

March 10, 2020
Circuits & Systems

Car2TERA poster

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car2tera website

Publication in Entropy

CURIE published a paper on “Robust and Scalable Learning of Complex Intrinsic Dataset Geometry via ElPiGraph”

March 06, 2020
Biotechnology & Health

Publication in Entropy

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iPC website

Press Release

CURIE elaborates on a better understanding of the intratumoral heterogeneity of Ewing sarcoma.

March 03, 2020
Biotechnology & Health

Press Release

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iPC website

2nd Newsletter

The 2nd newsletter of the Car2TERA project shows the results of the first project year and much more.

February 21, 2020
Circuits & Systems

2nd Newsletter

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car2tera website

Winter School (Gothenburg, Sweden)

The winter school on “Technology and Integration Platforms for Future mm-wave Communication and Radar Applications”, which took place from 15th – 17th January 2020 at Chalmers University in Gothenburg, Sweden was a great success. Please find here presentations on trends and requirements in emerging wireless systems, technology circuits for mm-wave communication and sensing, emerging mm-wave technologies and system integration as well as system level design analysis.
Read more

February 06, 2020
Circuits & Systems

Winter School (Gothenburg, Sweden)

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car2tera website

Publication in Molecular Pharmaceutics

IBM and UKL-HD published a paper on “Toward Explainable Anticancer Compound Sensitivity Prediction via Multimodal Attention-Based Convolutional Encoders”

January 30, 2020
Biotechnology & Health

Publication in Molecular Pharmaceutics

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iPC website

Paper published in Scientific Reports (Sci Rep)

Paper entitled: “Stabilized Reconstruction of Signaling Networks from Single-Cell Cue-Response Data”

January 27, 2020
Biotechnology & Health

Paper published in Scientific Reports (Sci Rep)

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iPC website

Publication in Blood Advances

BCM’s paper on “Atovaquone is active against AML by upregulating the integrated stress pathway and suppressing oxidative phosphorylation”

January 24, 2020
Biotechnology & Health

Publication in Blood Advances

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iPC website

NeurIPS 2019 paper

TUDA’s paper “Scalable Structure Learning of Continuous-Time Bayesian Networks from Incomplete Data” was accepted

January 21, 2020
Biotechnology & Health

NeurIPS 2019 paper

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iPC website

NeurIPS 2019 paper

IBM’s paper “PaccMannRL: Designing anticancer drugs from transcriptomic data via reinforcement learning” was accepted

January 16, 2020
Biotechnology & Health

NeurIPS 2019 paper

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iPC website

Publication in Bioinformatics Journal

CURIE published a paper on “cd2sbgnml: bidirectional conversion between CellDesigner and SBGN formats”

January 15, 2020
Biotechnology & Health

Publication in Bioinformatics Journal

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iPC website

EuMW 2019 Conference Paper (IEEE)

At the EuMW 2019 in Paris, Chalmers got a paper accepted “F-band Low-loss Tapered Slot Transition for Millimeter-wave System Packaging”.

December 12, 2019
Circuits & Systems

EuMW 2019 Conference Paper (IEEE)

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car2tera website

IEEE Sensors Journal Paper

Chalmers got a paper accepted by IEEE Sensors Journal. The title is “Micrometer Accuracy Phase Modulated Radar for Distance Measurement and Monitoring”.

December 12, 2019
Circuits & Systems

IEEE Sensors Journal Paper

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car2tera website

Paper published in Explainable AI in Healthcare and Medicine

Paper entitled: “DeStress: Deep Learning for Unsupervised Identification of Mental Stress in Firefighters from Heart-rate Variability (HRV) Data”

November 18, 2019
Biotechnology & Health

Paper published in Explainable AI in Healthcare and Medicine

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iPC website

Publication in Cell Reports

Publication by CURIE on “Transcriptional programs define intratumoral heterogeneity of Ewing sarcoma at single cell resolution”

October 25, 2019
Biotechnology & Health

Publication in Cell Reports

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iPC website

Publication in International Journal of Molecular Sciences

CURIE published a paper on “Independent Component Analysis for Unraveling the Complexity of Cancer Omics Datasets”

October 25, 2019
Biotechnology & Health

Publication in International Journal of Molecular Sciences

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iPC website

“The RNA Atlas”

UGent and collaborators present a more comprehensive atlas of the human transcriptome that is derived from matching polyA-, total-, and small-RNA profiles of a heterogeneous collection of nearly 300 human tissues and cell lines.

October 17, 2019
Biotechnology & Health

“The RNA Atlas”

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iPC website

“Using attention-based neural networks to enable explainable drug sensitivity prediction”

Published by Manica Matteo; Oskooei Ali; Born Jannis; Subramanian Vigneshwari; Saez-Rodriguez Julio; Rodriguez Martinez Maria

September 16, 2019
Biotechnology & Health

“Using attention-based neural networks to enable explainable drug sensitivity prediction”

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iPC website

“Inferring context specific PPI networks”

Published by Manica Matteo; Mathis Roland; Cadow Joris; Rodriguez Martinez Maria

September 16, 2019
Biotechnology & Health

“Inferring context specific PPI networks”

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iPC website

“Interpretability for computational biology”

Published by Nguyen An-phi; Rodriguez-Martinez

September 16, 2019
Biotechnology & Health

“Interpretability for computational biology”

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iPC website

“PIMKL: Pathway Induced Multiple Kernel Learning”

Published by Manica Matteo; Cadow Joris; Mathis Roland; Rodriguez Martinez Maria

September 16, 2019
Biotechnology & Health

“PIMKL: Pathway Induced Multiple Kernel Learning”

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iPC website

“Interpretable classification of molecular measurements”

Publication by Cadow Joris

September 16, 2019
Biotechnology & Health

“Interpretable classification of molecular measurements”

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iPC website

“Interpretability for computational biology”

Publication by Nguyen An-phi; Rodriguez-Martinez Maria

August 28, 2019
Biotechnology & Health

“Interpretability for computational biology”

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iPC website

“Using attention-based neural networks”

Publication on enabling explainable drug sensitivity prediction on multimodal data by Manica Matteo; Oskooei Ali; Born Jannis; Subramanian Vigneshwari; Saez-Rodriguez Julio; Rodriguez Martinez Maria

August 28, 2019
Biotechnology & Health

“Using attention-based neural networks”

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iPC website

“Computer Modeling of Clonal Dominance”

Publication on Memory-Anti-Naïve and Its Curbing by Attrition by Castiglione, Filippo; Ghersi, Dario; Celada, Franco.

July 29, 2019
Biotechnology & Health

“Computer Modeling of Clonal Dominance”

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iPC website

“From causal pathways to drug-response targets”

Presentation from Rosa Hernansaiz Ballesteros on multi-omic analysis to contextualise large signalling networks on 6th June 2019 at EMBL-EBI, Hixton, UK.

July 29, 2019
Biotechnology & Health

“From causal pathways to drug-response targets”

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iPC website

Video

Find out more about identifying effective personalized medicine for paediatric cancer in the explanatory video. 

July 19, 2019
Biotechnology & Health

Video

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iPC website

iPC Leaflet

The official leaflet of the iPC H2020 project containing Partners, Project Information, Mission, Vision and Goals of the project.

April 15, 2019
Biotechnology & Health

iPC Leaflet

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iPC website

“Assessing reproducibility of matrix factorization methods in independent transcriptomes”

Publication by Laura Cantini, Ulykbek Kairov, Aurélien de Reyniès, Emmanuel Barillot, François Radvanyi, Andrei Zinovyev

April 02, 2019
Biotechnology & Health

“Assessing reproducibility of matrix factorization methods in independent transcriptomes”

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iPC website

D10.1 “Internal and external IT communication infrastructure and project website”

This deliverable constitutes the launch of the internal and external iPC communication infrastructure including the establishment of mailing lists, new IT infrastructure and the iPC website.

April 01, 2019
Biotechnology & Health

D10.1 “Internal and external IT communication infrastructure and project website”

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iPC website

D11.1 “Project Quality Plan”

A handbook of the project management process, review process, quality checks, meeting organisation, which is communicated to all partners.

March 26, 2019
Biotechnology & Health

D11.1 “Project Quality Plan”

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iPC website

Press Release

New European Project Squares off against Paediatric Cancer

March 07, 2019
Biotechnology & Health

Press Release

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iPC website

Announcement Letter

The official announcement letter contains all relevant information about the iPC H2020 project.

January 01, 2019
Biotechnology & Health

Announcement Letter

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iPC website