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Postdoctoral Research Associate in Computer Vision, UK

The School of Informatics has been awarded funding from the EC for participation in a multi-site research project entitled Fish4Knowledge: “Supporting humans in knowledge gathering and question answering w.r.t. marine and environmental monitoring through analysis of multiple video streams”. The principal investigator on the Edinburgh component of the project that is responsible for process modelling and workflow execution is Dr. Jessica Chen-Burger. The project is funded from October 1, 2010 until September 30, 2013.

The research proposed here will take place in the AIAI unit of the Centre of Intelligent Systems and their Applications. CISA undertakes basic and applied research and development in knowledge representation and reasoning. Through its Artificial Intelligence Applications Institute (AIAI) it works with others to deploy the technologies associated with this research. AIAI specialises in Intelligent Systems – systems making use of the knowledge of experts, or systems that learn.

The research proposed here is funded under the EC’s Framework 7 ICT programme (Intelligent Information Management). Fish4Knowledge is a STREP (Specific Targeted Research Project).

The study of marine ecosystems is vital for understanding environmental effects, such as climate change and the effects of pollution, but is extremely difficult because of the inaccessibility of data. Undersea video data is usable but is tedious to analyse (for both raw video analysis and abstraction over massive sets of observations), and is mainly done by hand or with hand-crafted computational tools. Fish4Knowledge will allow a major increase in the ability to analyse this data: 1) Video analysis will automatically extract information about the observed marine animals which is recorded in an observation database. 2) Interfaces will be designed to allow researchers to formulate and answer higher level questions over that database.

The project will investigate: information abstraction and storage methods for reducing the massive amount of video data (from 10E+15 pixels to 10E+12 units of information), machine and human vocabularies for describing fish, flexible process architectures to process the data and scientific queries and effective specialised user query interfaces. A combination of computer vision, database storage, workflow and human computer interaction methods will be used to achieve this.

The project will use live video feeds from 10 underwater cameras as a test-bed for investigating more generally applicable methods for capture, storage, analysis and querying of multiple video streams. We will collate a public database from 2 years containing video summaries of the observed fish and associated descriptors. Expert web-based interfaces will be developed for use by the marine researchers themselves, allowing unprecedented access to live and previously stored videos, or previously extracted information. The marine researcher interface will also allow easy formulation of new queries. Extensive user community evaluations will be carried out to provide information on the accuracy, ease and speed of retrieval of information.

Project Environment and Conditions
The Edinburgh portion of the project will normally not use any specialised equipment. The image capture and supercomputer based processing are primarily NARL’s responsibility. A 500+ node compute server parallel system is also accessible by the group. Wherever possible we will use either MATLAB and C/C++ within a LINUX/UNIX environment (mainly for speed). There is some existing software related to this project. Altogether, there are 10 PCs available for use by the vision research group (consisting of about 10 members, including contract research staff, PhD and MSc students).

The UEDIN workflow team will have to liaise closely with other teams, particularly with the UCATANIA image processing team over the interaction and use of their fish detection and tracking software, the UEDIN machine vision team over the interaction and use of their fish recognition system, the CWI team over the development of properties suitable for question answering and the interaction with their systems, and the NARL team over the development of parallel workflow execution algorithms.

Application Deadline: 5th October 2010

For further scholarship information

Postdoctoral Research Fellow in Marine Microalgal Physiology for International Students, University of Oslo, Norway

The CEES is a centre of excellence for integrative biological research and is well-funded. It provides a stimulating research environment, situated at the Department of Biology, with many young international and Norwegian scientists working on a variety of theoretical and empirical topics within ecology, evolution, population genetics, genomics, phylogenetics, molecular biology, and statistical methodology. The CEES is chaired by Nils Chr. Stenseth and currently employs 20 faculty members, 40 postdocs/researchers, 35 PhD students and 36 MSc students. Information about the centre can be found at:

The fellowship period is 3 years and starting date 1 January, 2011.

Job Description:

The position is funded by the Norwegian Research Council as part of a project that investigates climatic adaptation and long-term evolution in marine phytoplankton. This research project will study the adaptive response of marine calcifying algae (coccolithophores) to climatic change within a cross-disciplinary framework of fossil time series data, controlled culture experiments and evolutionary modeling. Bridging the fields of geology and biology, this research will study coccolithophore size variability in light of physiology, ecology and evolutionary theory. The post-doctoral fellow will use laboratory culture experiments to compile a comprehensive data set of physiological responses (growth rate, calcification rate and cell/coccolith size) of living coccolithophore species to changing environmental conditions (e.g. pH, nutrient availability). The planned short-term growth experiments will inform hypotheses regarding phenotypic plasticity in single genotypes. If it can be established within modern species whether the degree of morphological variation is an accurate measure of genetic variation, rather than phenotypic plasticity, then we can extrapolate this to the fossil record and test evolutionary models of genetic variation over longer timescales. Ideally, this project will go one step further and also assess the effects of climatic adaptation by monitoring several lines of coccolithophores over longer incubation times (months to years) comparing ambient and future climatic scenarios (e.g. high pCO2, low pH, high temperature, low nutrients).

Requirements:

The successful candidate must have a Doctors degree or equivalent in Biology (or other relevant field within Biological or Earth Sciences and Environment), preferably with speciality in marine botany or phycology. Extensive experience in biological laboratory methods, experimental work and microscopy is required. Experience in algal culturing (coccolithophores or other phytoplankton), marine biological fieldwork and/or biological oceanography or limnology will strengthen the application. Dissemination of the research through publications and presentations are important parts of this position. The successful applicant will also have to take part in administrative work connected to the project. Good writing skills and some experience with project management are thus desired.

A good command of English is required.

The application must include:

Application letter including a statement of interest, summarizing the applicant’s scientific work and interests and describing how she/he fits the description of the person we seek
CV (summarizing education, positions, pedagogical experience, administrative experience and other qualifying activity), including a list of published and unpublished works
Copies of educational certificates, transcript of records, letters of recommendation
A complete list of publications and up to 5 academic work that applicant wishes to be considered by the evaluation committee
Names and contact details of 2-3 references (name, relation to candidate, e-mail and telephone number)

Foreign applicants are advised to attach an explanation of their University’s grading system. Please remember that all documents should be in English or a Scandinavian language.

Closing date for applications: 1 September 2010

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Postdoctoral Research Associate in Computer Vision, UK

Postdoctoral Research Fellow in Marine Microalgal Physiology for International Students, University of Oslo, Norway