On 18May – The title of the journal publication is “The devil is in the details: Whole Slide Image acquisition and processing for artifacts detection, color variation and data augmentation. A review” . This work has been a successful collaboration between the University of Granada and the University of Stavanger.

After two years, many interesting things have happened in CLARIFY project! If you want to know the last outcomes of the project, don’t forget to read the latest issue of our Newsletter.

2nd CLARIFY Training School is here! Online attendance is now open to general public. More information and registration in the button.

CLARIFY is almost two-year-old, read our newsletter to know the last outcomes of the CLARIFY project, including scientific results, ESR project updates, dissemination actions, events, training activities, secondments, etc.

Laëtitia (ESR7 at UPV) started last month her 2-month on-site secondment at the INCLIVA foundation, where Andrés (ESR12) is doing his Ph.D., under the supervision of Carlos Monteagudo.

Laëtitia is the first ESR to have the opportunity to do an on-site secondment because of the pandemic restrictions, as all other on-going secondments are currently held online.

Keep updated about the CLARIFY project and be one of our first readers!

First CLARIFY secondments secondments started from March 2021. Due to COVID mobility restrictions, most of them were virtual.

All CLARIFY’s ESRs are already enrolled and starting their careers. Welcome to Na Li, Yuandou Wang, Jiahui Geng, Neel Kanwal, Saul Fuster Navarro, Claudio Fernandez, Laëtitia Launet, Arne Schmidt, Zahra TabaTabaei, Farbod Khoraminia, Umay Kiraz, Andrés Mosquera-Zamudio. A great team!

Visit Researchers section to get to know them!

CLARIFY: a European project about digital pathology to aid in diagnosis of three types of cancer

The COVID-19 outbreak had also consequences on CLARIFY project. The incorporation of the ESRs had to be postponed. First ESRs joined CLARIFY network in sep-2020.

Visit Researchers section to get to know them.

Visit EURAXESS and Researchers section for more information.
Application deadline: 15-Feb-2020

CLARIFY – CLoud ARtificial Intelligence For pathologY – starts on 1-nov-2019 and ends 31-oct-2023. The project, coordinated by the Universitat Politècnica de València (Spain), is funded under the programme: H2020-EU.1.3.1. – Fostering new skills by means of excellent initial training of researchers.  

On September 3-7, 2022, ESR11 attended the 34th European Congress of Pathology  which took place in Basel, Switzerland. At the event, the latest improvements in different fields of pathology, especially in digital pathology, were discussed.

On August 22-26, 2022, ESR2 attended the 36^th edition of the annual conference of the ACM Special Interest Group on Data Communication which took place in Amsterdam.

On August 12-14, 2022, ESR12 participated as a speaker at the 43th Colombian Congress of Pathology, held in Cartagena de las Indias and organised by the Colombian Association of Pathology (ASOCOLPAT).

On August 7-14, 2022, ESR4 attended the Oxford Machine Learning Summer School which was organised by AI for Global Goals. The event was organised with the aim of providing the best training in a wide range of advanced topics and developments in machine learning (ML) including deep learning.

On July 10-16, 2022, ESR2 attended the 18^th International Summer School on Advanced Computer Architecture and Compilation for High-performance Embedded Systems . This event was organized by the HiPEAC Network.

On July 1-4, 2022, ESR10 attended the European Association of Urology Annual Congress  which is Europe’s biggest urological event. The 37th Annual EAU Congress included a wide range of sessions by urological experts from all around the world and took place in Amsterdam.

On June 21, 2022, ESRs had the pleasure to attend the 3rd CLARIFY Virtual Fieldtrip titled “How to develop a software application. The importance of the usability” led by Tyris Software  one of our consortium members . Javier Oliver, founder, and CEO at Tyris Software explained the importance of the user experience in the development of digital products, specifically in the digital product design.

On June 16-18, 2022, ESR11 attended the 18th European Congres son Digital Pathology,  celebrated in Berlin, where the latest topics on digital and computational pathology were discussed.

On June 13-14, 2022, ESR4 and ESR5 participated and presented their research activities at hAIST conference, held in Stavanger. This conference is arranged by member of Kunstig intelligens i norsk helsetjeneste (Artificial Intelligence in the Norwegian health service).

On May 31, 2022, ESR2 and ESR7 attend the conference, where presentations with different approaches to the use of the FLOWER framework and the current challenges of federated learning in different fields took place.

On March 9-10, 2022, ESR11 presented two posters in the National Network for Breast Cancer, entitled “Relation between prognostic factors and MicroRNAs (miR-18a/miR-18b) in triple negative breast cancer” and “Comparison of proliferation and other prognostic biomarkers in primary invasive lymph node negative breast cancer in Spain and Norway”.

On June 9-10, the Norwegian Artificial Intelligence Research Consortium organized the NORA Annual conference in Stavanger. In this conference, ESR4 and ESR5 presented abstracts of their ongoing work.

The 2nd CLARIFY training school was held in Granada, April 4-7, 2022. These three days have been full of interesting seminars by some distinguished members of our External Advisory Board, fruitful technical lectures by some of CLARIFY supervisors, and productive workshop on different transversal areas.

For more information about the programs and their speakers, visit: Day 1 – Programm, Day 2 – Programm, Day 3 – Programm

On October 12, 2021, ESR4, ESR6 and ESR11 attended a Diaceutics Webinar: “Digital pathology and implementation of AI scoring algorithms in clinical practice”. Dr. Bert van der Vegt discussed digital pathology and the implementation of artificial intelligence scoring algorithms in clinical practice from a laboratory perspective. He shared some insights on the current state of digital pathology and the use of artificial intelligence scoring algorithms in various European countries.

On November 4-5, 2021, ESR5, ESR7 and ESR12 participated as speakers in an online Colombian event organized by Keralty about AI and its opportunities to transform the healthcare field. ESR7 and ESR12 presented the medical vs. engineering perspectives of histological image analysis, while ESR5 talked about the challenges of the implementation of intelligent systems in the clinical practice. ESR12 also spoke about the recent advances of AI in the digital pathology field.

On September 30, 2021, the Stavanger University Hospital (SUH) organized the seminar “Stavanger Day in Pathology” with more of 50 attendants among members of the SUH Pathology department (included CLARIFY ESR6 and ESR11) and students of Pathology.

On 27Sep – 1Oct 2021, ESR8 presented a paper on the topic of Multiple Instance Learning in the 24th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2021). This work is a successful collaboration between the University of Granada and the Northwestern University.

On Sep 17-22, 2021, ESR10 and ESR11 attended EMPAIA Academy training program where renowned speakers from the fields of IT, artificial intelligence (AI) and pathology talked about their experiences, use cases and the latest developments in digital pathology. Courses: (i) Introduction to Pathology and AI in Pathology, (ii) Introduction to Computational Pathology, (iii) Requirements for Application of AI.

On Sep 17, 2021, the ESR3’s work titled “Optimized Federated Learning on Class-biased Distributed Data Sources” was presented in the 4th Workshop on Parallel, Distributed and #FederatedLearning as part of the ECML-PKDD 2021 conference.

On 26th of August 2021, Andrés Mosquera ESR12 explained in the Colombian Association of Pathologists (ASOCOLPAT) the utility and concepts of deep learning in digital pathology in his lecture “Deep learning for pathologists” (presentation in Spanish).

From 13 to 15 September 2021, Zahra (ESR9) attended a summer school on artificial intelligence (AI), organized by Virtual Vehicle Research GmbH, Graz University of Technology and University of Graz.

On 13-14 September 2021, ESR4 Neel Kanwal and ESR5 Saul Fuster Navarro presented their ongoing research about CLARIFY at NOBIM (Norwegian Association of Image Processing and Machine Learning) held at Oslo Gardermoen.

On May 26, Andres ESR12 attended to the Online Course “Spitzoid Melanocytic Tumors: Histological-Genetic Correlations: Expert Analysis of 70 Spitzoid Melanocytic Proliferations With Known Genetic Changes” directed by Dr.Artur Zembowicz and Pedram Gerami. By Dermpedia.org.

ESR3 and ESR4 presented their paper (DID-eFed: Facilitating Federated Learning as a Service with Decentralized Identities) at EASE 2021  Trondheim Norway, held virtually on June 24, 2021, within the 2nd Blockchain Software Engineering Workshop.

On June 22, 2021, ESRs had the pleasure to attend the 2nd CLARIFY Virtual Fieldtrip titled “Anatomic pathology instruments and reagents” led by ROCHE, one of our partner organizations. ROCHE showed a virtual demo of some of their solutions for the Anatomic Pathology Lab.

On April 22, 2021, Neel, ESR4 at UiS, attended a webinar on “Enabling Interoperability for Digital and Computational Pathology in the Age of Artificial Intelligence: Current Status and Future Directions”  by the Digital Pathology Association (DPA).

On 14-16 Apr 2021, after closing the CLARIFY training school, the first CLARIFY annual meeting started, in which all CLARIFY ESRs presented themselves, their background, their individual research projects and the work performed until then. A meeting with the distinguished members of the CLARIFY External Advisory Board was held and the different CLARIFY committees were joined. Finally, the first CLARIFY annual meeting concluded with the Mid-term check by the REA – European Research Executive Agency – to assess the project at that point.

On 13-14 Apr 2021, the first CLARIFY training school was held. The event was composed of 3 technical courses lectured by some of the CLARIFY supervisors and 3 master classes by some distinguished members of our External Advisory Board. Besides, we had also a workshop and two seminars to cover relevant transferable skills issues.

For more information about the sessions and their speachers, visit: Day 1 – morning session, Day 1 – afternoon session, Day 2 – morning session.

On 23-27 March 2021, ESR2 has attended the 2020 international conference on high performance Computing & Simulation (HPCS 2020) online event, Under the theme of “HPC and Modeling & Simulation for 21st Century”, HPCS 2020 focused on a wide range of the state-of-the-art as well as emerging topics pertaining to high performance and large-scale computing systems at both the client and backend levels.

On 1-5 March 2021, ESR11 attended the Molecular diagnostics and genomics in breast cancer event organized by Onco Corner, the e-learning platform from Sharing Progress in Cancer Care (SPCC).

On the 23rd of February 2021, ESR7 participated in a MATLAB seminar to learn more about using MATLAB libraries within Python.

Claudio Fernandez and Laëtitia Launet, respectively ESR6 and ESR7 at the UPV, attended the IEEE EMBS Grand Challenge Forum on Data Science and Engineering in Healthcare, held virtually on Feb 10-13, 2021.

On 11-Feb-2021, ESR10 attended the Bridge meeting on Molecular and Digital Pathology with the aim of diving deeper into disease pathology.

From the 4th to the 5th of February 2021, ESR12 attended the XLIV Annual Meeting of the Sociedad Española de Anatomía Patológica, the Spanish Division of the International Academy of Pathology.

On Jan 26, 2021, took place the first on-line networking training session of CLARIFY. Supervisors, co-supervisors and ESRs introduced themselves as an introduction to partner’s expertise and disciplines. This training was hosted by UPV.

Na Li, ESR1 from UvA, participated at the 19th International Semantic Web Conference (ISWC 2020), the premier international forum for the Semantic Web and Linked Data Community.

Yuandou Wang, ESR2 from UvA, gave a short virtual talk about “Decentralized workflow management on software defined infrastructure” at the 1st Workshop On Data-Centric Workflows On Heterogeneous Infrastructures: Challenges And Directions (DAWHI), in the context of IEEE Services Congress, 2020. 

Universitat Politècnica de València attended  to the H2020 MSCA ITN 2019 – Coordinators’ Info Day organised by the European Commission on 22nd November in Brussels.

On 7th and 8th November, CLARIFY’s kick-off meeting took place in Valencia (Spain).

Hello everyone! This is Claudio Fernandez, Laëtitia Launet and Andrés Mosquera, ESR6, ESR7 and ESR12 at CLARIFY, respectively. Today we are going to talk about our experience during our second Secondment at ROCHE Diagnostics.

I am Na Li, a PhD student in computer science at University of Amsterdam, currently exploring notebook search for scientific users. In this post I will introduce my observations for researchers’ intents when they search for research resources, which mainly derive from communication with members at the CVBLab in UPV. 

Hi readers! This is Neel, a Ph.D. from the University of Stavanger. Let’s look together for the causes of cancer and its routine treatments.

That secondment was the starting point of collaborations with Yuandou and the team at UvA that are actually still on-going and that we plan to continue. Hoi! Today, I wanna talk to you about my secondment in Amsterdam ☺

In this post, I explain how going on secondment could help you gain a broader overview of your project’s topic and make your collaboration more efficiently

Hello there! For today’s post, I will share my experience during my secondment at bitYoga AS, what I learned by taking blockchain lectures and an ongoing collaboration with ESR3. 

Hello everyone! This is Claudio Fernandez Martín, ESR6 at CLARIFY. Today I am going to tell you all about my experience during my three-month Secondment at the Stavanger University Hospital (SUH) in Norway.

Hi, world! Today I am going to share my experiences at UIS, as my second secondment.

Hi everyone! I am ESR4, Neel Kanwal, and I am back discussing what I learned from my stay in Granada.

Hi, everyone, in this blog I will introduce my secondment experience at the University of Amsterndam.

Today Arne Schmidt (ESR8) talks about his virtual secondment at the University of Stavanger about Whole Slide Image preprocessing, Multiple Instance Learning with attention and the classification of bladder cancer.

Hi! Na Li, Neel Kanwal and Farbod Khoraminia will talk about their virtual secondment experience at Stavanger University Hospital.

Hi everyone! Today I am going to share my perfect experience in INCLIVA, where I was for one month of my project.

The virtual secondment in EMC in Rotterdam consisted in attending to the weekly lab meeting with the bladder cancer group and a course with the uropathologist explaining bladder cancer.

Hello there! For today’s post, I will share my experience during my virtual secondment at Erasmus MC Rotterdam, what I learned and my thoughts.

Hi! Today, I will talk a bit about my experience at the INCLIVA foundation where I did a 2-month on-site secondment.

Hi everyone! Today we (Claudio, Laëtitia and Andrés) will talk about the online secondment we did at Roche Diagnostics S.L.U.

Topic: Tools, good practices and use cases for digital pathology