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The Visual Computing Forum, or VCF, is a
series of seminars organized by the visualization
group with selected talks from the fields of
visualization, image processing, computer graphics,
and so on. The individual seminars are arranged
approximately once a month, on Fridays from 11am to
12am, and they will be interleaved with the MedViz seminars.
They will be held either at the Høyteknologisenteret
or at the VilVite
Science Center. If you wish to be informed about upcomming VCF events, please write an e-mail to "vcf.bergen@gmail.com", "Helwig.Hauser@UIB.no" or "Sergej.Stoppel@UIB.no".
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November 18th, 2016
Title: Modeling the human larynx for simulation of airflow during exercise
Speaker: Alexander Lundervold
Place: Lille Auditorium (208N2), 2rd floor Høyteknologisenteret
Time: Friday November 18th, 2016, from 10:15am to 11:00am
Abstract:
Obstruction of the central airways is typically expressed by exercise-induced
inspiratory symptoms (EIIS) and is an important cause of exercise induced dyspnea in
young and otherwise healthy individuals.
We are constructing a computational model for the larynx that will be used to
simulate the airflow. The aim is to understand the larynx’s role for breathing
problems: which obstructions leads to problems, and why.
To obtain the proper laryngeal geometry we use a combination of MRI and CT data
acquired at HUS and NMBU. Our computational model is based on image and
laryngoscopy data, and constructed using COMSOL Multiphysics, a finite-element
based software package widely used in computer-aided engineering.
The simulations aim to uncover the effect of geometry changes in the supraglottic
region on the characteristics of the airflow through the larynx.
Additional material:
Flyer
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October 14th, 2016
Title: An update on seeing and touching molecules in motion through interactive molecular graphics
Speaker: Marc Baaden
Place: Lille Auditorium (208N2), 2rd floor Høyteknologisenteret
Time: Friday October 14th, 2016, from 10:15am to 11:00am
Abstract:
For several years now, our team pursues the goal to study complex
molecular assemblies through interactive visualization, manipulation
and analysis approaches to aid hypothesis generation and exploration
of complex datasets. The UnityMol framework [1] forms a central tool
for these investigations and is based on the Unity3D game engine.
A first line of research tries to help with the 3D context, for instance
through content-guided navigation, exploded views and semantic links
between molecular objects and their analysis data [2].
Concerning the molecular representations, we extended the UnityMol
repertoire to include specific visualizations for sugar molecules [3]
and are now including coarse-grained systems by default. These are
particularly apt for interactive simulations, even in the classroom or
via crowdsourcing. A particular focus lies on the integration of
dedicated hardware such as large, high-resolution display walls, or
more recently head-mounted virtual reality headsets or augmented
reality setups.
[1] Lv et al., Game on, Science - how video game technology may help
biologists tackle visualization challenges, PLoS ONE 8(3):e57990, 2013
(http://unitymol.sourceforge.net)
[2] Trellet et al., Interactive Visual Analytics of Molecular Data in Immersive
Environments via a Semantic Definition of the Content and the Context,
IEEE VR 2016/VR 2016 Workshop on Immersive Analytics
[3] Pérez et al., Three-Dimensional Representations of Complex Carbohydrates
and Polysaccharides. SweetUnityMol: A Video Game Based Computer Graphic
Software, Glycobiology 25, 2015, 483-491; doi: 10.1093/glycob/cwu133
Additional material:
Flyer
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September 30th, 2016
Title: Analyzing Complex Biomedical Data to Improve Patient Care
Speaker: Marc Vaudel
Place: Lille Auditorium (208N2), 2rd floor Høyteknologisenteret
Time: Friday September 30th, 2016, from 10:15am to 11:00am
Abstract:
High throughput sample characterization techniques like genomic sequencing have revolutionized
modern patient care and led to the paradigms of personalized and precision medicine. However,
comprehensive analytical approaches, the so-called omics fields, have also revealed the overwhelming
complexity of biological systems, and require the interpretation of massive amounts of data. As a result,
there is currently a major gap between what can be inferred from patient samples and what is actually used in the clinics.
This presentation will introduce key concepts in using omics techniques for precision medicine, and underline
some of the challenges associated with patient data interpretation. A particular emphasis will be given to the
complexity of associating the omics data with disease mechanisms, and to the importance of making the results
intelligible to all. Interactive data visualization plays a crucial role in this process, yet much remains to
be done before patients can fully benefit from these modern approaches.
Talents, ideas and expertise are much needed to overcome the challenges ahead. You are warmly invited to join the effort!
Additional material:
Flyer
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August 12th, 2016
Title: Reproducibility in Visual Computing
Speaker: Paul Rosenthal
Place: Room 302O1 (former 3137), 3rd floor Høyteknologisenteret
Time: Friday August 12, 2016, from 10:15am to 11:00am
Abstract:
Reproducibility is the basis of all sciences. Without reproducibility,
there is no advancement by building on previous knowledge and there can
be no judgment of the reliability of current knowledge. As all fields of
visual computing have matured, procedures for verifying and evaluating
techniques have been introduced also in these field. While many individuals
are making their code and procedures available, there are no established
guidelines for reproducibility in the communities. However, introducing
such practices would increase the acceptance of visual computing methods
in other communities, make contributions more well-grounded, and expedite
future innovation by making comparisons and improvements easier. In this talk,
I will discuss this important role and the benefits of a strong culture of
reproducibility. The explanations will be carried out with special focus on the
fields of visualization, human-computer interaction, and computer graphics. Still,
they can be transferred to other disciplines in many aspects and stimulate
the respective discussion there.
Additional material:
Flyer
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May 27nd, 2016
Title: Perfusion modeling - The link between reservoir simulation and medical compartment modeling
Speaker: Erik Hanson
Place: Room 302O1 (former 3137), 3rd floor Høyteknologisenteret
Time: Friday May 27, 2016, from 10:15am to 11:00am
Abstract:
Perfusion, the amount of blood feeding a volume of tissue, has for decades been possible to measure
using medical imaging techniques and simple mathematical models. The imaging technology and the
mathematical and numerical tools needed to solve the models have evolved rapidly over this period.
At the same time, the models themselves have not changed accordingly. In this talk we will se how
methods for modeling of porous media flow may contribute to a better mathematical understanding of
perfusion modeling. The pressure driven flow trough a capillary system is an essential concept both
in perfusion and reservoir/porous media simulation. We will discuss how this link may contribute to
an improved modeling framework suited to make use of the extensive amount of information accessible
through modern 4D medical imaging.
Additional material:
Flyer
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April 22nd, 2016
Title: Untangling intracellular signaling network in cancer
Speaker: Bjørn Tore Gjertsen
Place: Room 302O1 (former 3137), 3rd floor Høyteknologisenteret
Time: Friday April 22, 2016, from 10:15am to 11:00am
Abstract:
Protein and gene networks centered on the regulatory tumor suppressor proteins may be of crucial
importance both in carcinogenesis and in the response to chemotherapy. Tumor suppressor protein
p53 integrates intracellular data in stress responses, receiving signals and translating these into
differential gene expression. Interpretation of the data integrated on p53 may therefore reveal the
response to therapy in cancer. Proteomics offers more specific data – closer to “the real action” –
than the hitherto more frequently used gene expression profiling.
We are currently working with single cell immune profiles that include information about intracellular
signaling systems. Patient cancer cells are sampled before and under therapy to determine response or
therapy failure as early as possible, thereby adjusting therapy to the benefit of the patient. Data
visualization tools have been imperative for our interpretation of measurements. The question open
for discussion is if we need better data visualization tools to easy grasp the dynamics of cancer,
and if we have these tools available for visualization with exponentially increasing data density.
Additional material:
Flyer
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March 18th, 2016
Title: Seismic imaging and model building
Speaker: Ola Kristoffer Øye
Place: Room 3137, 3rd floor Høyteknologisenteret
Time: Friday March 18, 2016, from 10:15am to 11:00am
Abstract:
Seismic imaging is an important tool for understanding the subsurface in oil and gas
exploration and production. Going from recorded seismic data to a high resolution seismic
image requires several steps of data processing, model building and migration, often run through
several iterations. In this talk I will cover some of the techniques involved in the seismic
imaging pipeline, with focus on data driven model building and migration. I will cover how
data and images can be analyzed in different domains, and discuss some of the challenges in
producing high quality seismic images.
Additional material:
Flyer
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February 19th, 2016
Title: Visualization, story telling, and the big picture.
Speaker: Rasmus Slaattelid
Place: Room 3137, 3rd floor Høyteknologisenteret
Time: Friday Febraury 19, 2016, from 10:15am to 11:00am
Abstract:
At the University of Bergen, there exists several research environments that focus on
visualizations. Visualizations of data, or of scientific knowledge more generally, visual cultures,
diagrammatic thinking, and story-telling in visual media. If we look beyond the UoB, the picture
grows even more diverse. This multitude of approaches and interests already suggests that a
comprehensive understanding of visualization as a cognitive tool within one discipline is difficult,
and that more collaboration across these disciplinary divides would be fruitful. The aim of my talk is
to present some possible common areas of interest between different disciplines studying
visualizations.
Additional material:
Flyer
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Januar 29th, 2016
Title: What is going on at the IRIS offices in the 8th floor?
Speaker: Rodica Mihai and Geir Nævdal
Place: Room 3137, 3rd floor Høyteknologisenteret
Time: Friday January 29, 2016, from 10:15am to 11:00am
Abstract:
IRIS has an extensive research activity within energy, social sciences and marine biology. Main areas for IRIS
Energy are drilling and well technology, reservoir technology, green technologies and research testing
facilities.
We will give a short introduction to our work within real time modelling of the drilling process and name
some of its challenges. Products of this work are among others, an unique simulation environment called
Virtual Rig as well as automated drilling solutions which have been successfully implemented offshore.
In the second part of the presentation we will introduce shortly our work on ensemble based methods for
large scale parameter estimation and optimizations problems, with a particular focus on flow in porous
media, namely oil reservoirs.
Main research area in IRIS has been so far oil related but we have currently increasing ongoing research
activity to apply similar techniques within other research areas such as medicine research, i.e. blood flow
modelling
Additional material:
Flyer
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VCF seminars in
2017,
2016,
2015,
2014,
2013,
2012,
2011
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