Department of Information Technology

Biomedical Information Technology

At the Department of Information Technology we run a wide variety of projects within the area of Biomedical Information Technology.

Contact: biomedIT@it.uu.se

Current activities | List of projects | Earlier activities

Biomed-IT Research Arena

News

April 26: Workshop for the initiation of new collaborations with GE Healthcare. Participating speakers from GE as well as the IT department, hosted by the BiomedIT arena. 9.00-12.00, free lunch afterwards. Register here no later than April 19 for lunch and fika. A call will be made for seed money supporting collaborations between the department and GE.

Room ITC 4308
Preliminary program:
09.00-09.10 Welcome (Alexander Medvedev, Johan Tysk)
09.10-09.20 Digitization at GE Healthcare, an overview (Stefan Löfås, science director, GE Healthcare)
09.20-09.35 Machine Learning (Thomas Schön, UU)
09.35-09.50 Brilliant Factory in Bioprocessing (Klaus Gebauer, GE)
09.50-10.05 Image Analysis (Ida-Maria Sintorn, UU)
10.05-10.20 Continuous Use (Anders Nygård, GE)
10.20-10.40 Coffee
10.40-10.55 Software Engineering (Carl Nettelblad, UU)
10.55-11.10 Standardization and Technical Solutions for Data Storage (Fredrik Jarhede, GE)
11.10-11.25 Network security (Christian Rohner, UU)
11.25-11.40 IT for Biopharma Equipment and Workflows (Per Hammer, GE)
11.40-11.55 Process Control (Alexander Medvedev, UU)
11.55-12.10 Testa Center/GE hub (Jesper Hedberg, GE)
12.10-12.20 Closing Words, SPARC announcement (Alexander Medvedev)
12.30- Lunch

May 31: The BiomedIT Research Arena will organise an AIMday focusing on the use of machine learning in life science and medicine at Navet, BMC, Uppsala University. See the aimday homepage.

News from outside the department

David Silverstein (KTH school of Electrical Engineering and Computer Science, department of Computational Science and Technology) will defend his thesis Investigations of neural attractor dynamics in human visual awareness on March 26th.

Innovative Medicines Initiative (an initiative from the European Union) will have an upcoming call titled Development of a platform for federated and privacy-preserving machine learning in support of drug discovery.

Joint Transnational Call for Proposals for "Research Projects on Personalised Medicine - Smart Combinatoin of Pre-Clinical and Clinical Research with Data and ICT solutions". Preliminary announcement of call regarding transnational, cross-disciplinary projects. Final call will be released in February, with a pre-application deadline for consortia in April.

Artificiell intelligens för bättre hälsa. Vinnova call. Deadline March 20.

SSF call. Deadline: March 21.


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Projects within Biomedical Information Technology

We run a wide variety of projects within the area of Biomedical Information Technology. Here we list brief summaries of ongoing projects.

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Previous activities

Inauguration of Uppsala MedTech Science & Innovation. Video of the event.

Workshop on current Biomed-IT projects in Uppsala

Date and time: October 17, 12:00-16:00
Room: ITC 4308
biomedIT_WS_HT2017_lowres.png
Poster as pdf
Sign up here.

HASTE: Hierarchical Analysis of Spatial and Temporal Data From intelligent data acquisition via smart data-management to confident prediction Abstract
  • Carolina Wählby, Division of Visual Information and Interaction, Dept. of IT, UU
  • Andreas Hellander, Division of Scientific Computing, Dept. of IT, UU
GE Software for Biopharmaceuticals Abstract
  • Key Hyckenberg, Staff Software Engineer, Life Sciences, GE Healthcare
Haptics-Assisted Cranio-Maxillofacial Surgery Planning using Interactive 3D Image Segmentation and Visualisation Abstract
  • Ingela Nyström, Division of Visual Information and Interaction, Dept. of IT, UU
  • Andreas Thor, Oral & Maxillofacial Surgery, Dept. of Surgical Sciences, UU
Next Generation Sequencing of Ancient DNA - Challenges and Opportunities Abstract
  • Torsten Günther, Dept. of Organismal Biology, UU
Health and Biodiversity in the Era of Data-Driven Research Abstract
  • Björn Nystedt, National Bioinformatics Infrastructure Sweden, NBIS

Site visit to the Radiology department

There will be a guided tour where we get information about, and visit, different acquisition systems such as X-ray, CT, PET, Angio and MR. During the site visit, we will also get a presentation, and demo, of the information systems PACS and RIS.
Host: Per Albrektsson
Venue: We meet by entrance 85
Date and time: May 5, 13:00-16:00
Maximum number of participants: 25
Register here

Lunch seminars on current challenges in biomedical information technology Spring 2017

March 29, 12:00-13:00, Room ITC2446.
Computational challenges in the era of modern genomics: the problems
Manfred Grabherr, PI at IMBIM, UU
Computational challenges in the era of modern genomics: the solutions
Neda Zamani, researcher in the Grabherr group
Register no later than March 27 for a free sandwich

February 23, 12:00-13:00, Room ITC2446.
Electronic Health Records
Benny Eklund, IT Strategist, County Council of Uppsala
Patient empowerment - a side effect of modern technology Video

Lunch seminars on current challenges in biomedical information technology Autumn 2016

NEW: Videos from the lectures are now available on Uppsala University's YouTube channel. See links in the information below.

Digital Health. October 6, 12:00-13:00, Room ITC2446.
- Dag Nyholm, Medical Doctor, Neurology, Department of Neuroscience, UU. Video.
- Maria Hägglund, Senior Researcher, Health Informatics Centre, KI. Video.

Personalized Care Outside the Hospital. October 20, 12:00-13:00, ITC2344.
- Per-Olof Sjöberg, head of the Business and Innovation area eHealth, SICS. Video.
- Helena Grönqvist, Researcher and Research Coordinator, U-CARE, Dept. of Public Health and Caring Sciences, UU. Video.

Personalized/Individualized Medicine. November 10, 12:00-13:00, Room ITC2446.
- Päivi Östling, Senior researcher, Dept. of Oncology-Pathology, KI. Video.

Big Data in Medicine. November 17, 12:00-13:00, Room ITC2446.
- Ola Spjuth, Associate Professor, Dept. of Pharmaceutical Biosciences, UU. Video.
- Emma Lundberg, Associate Professor, Human Protein Atlas, KTH. Video.

Slides from the Biomed-IT workshop May 18, 2016

Workshop on Biomedical Information Technology, including final presentations of SPARC Projects.

- Design for Improved Patient Safety: Resilience Engineering and Sociotechnical Systems Design in Intensive Care. Speaker: Anders Jansson
- Automated multiscale analysis of TEM images for improved cost-effective diagnosis of cilia disorders. Speaker: Ida-Maria Sintorn
- Inference and Data-driven Modeling of population of Cells. Speaker: Stefan Engblom
- Director of Research and Education, Professor Uppsala University Hospital. Speaker: Sune Larsson
- Vice-rector of the Disciplinary Domain of Science and Technology. Speaker: Johan Tysk
- Mathematical Modeling of Neural and Behavioral Response in Deep Brain Stimulation. Speaker: Alexander Medvedev
- Computerized Image Analysis for Ophthalmologic Applications. Speaker: Filip Malmberg
- Chopsticks: Motion Sensors for Medical Diagnosis and Habilitation. Speaker: Edith Ngai

Updated  2018-04-18 10:49:29 by Robin Strand.