CoLIS 7: Doctoral forum

June 25, 2010 at 10:40 am | Posted in lecture, thesis, work | Leave a comment
Tags:

Presented at the CoLIS 7 doctoral forum on Monday and got some very encouraging feedback from the session leaders and the other students.

It was really fascinating to get an insight into how everyone else’s research is coming along, the different approaches they are taking, and the unique problems each of us face in trying to get anywhere with our research.

Our doctoral group included students working on everything from tagging in archives and online communities based around the Twilight saga to the philosophical idea of ‘information refusal’ to retrieval challenges for Quranic resources. Oh, and I should mention a project looking at social media use in public libraries and bibliometrics in the literature studies domain. I think that was everyone – you know who you are!

My (unused) project presentation

Some notes I made to prepare

Many thanks to Jutta Haider for her hard work in organising the forum – it was great!

Popper’s 3 Worlds and the growth of knowledge in biology

June 9, 2009 at 8:11 am | Posted in work | Leave a comment
Tags:

For the past few months I have been drafting an essay entitled, ‘Popper’s 3 Worlds and the growth of knowledge in biology’. Abstract below:

Modern biology is driven by an information perspective and an increasing reliance on informatics to help answer questions about complex living systems. I will argue that an epistemological model serves a useful purpose in framing information problems in the life sciences, and that Popper’s 3 Worlds model should hold a particular appeal to biologists.

Popper’s model is defended against several criticisms and special importance is placed on World 3, with a view to asserting the existence of objective knowledge in biology, and the growth of this knowledge through scientific inquiry. Information entities in biology are considered within the 3 Worlds model and, in so doing, new light is cast on certain persistent problems in bioinformatics and the wider implications for e-science strategies in general.

Although Popper’s philosophy has fallen somewhat out of fashion, I maintain that the new information perspective in biology implicitly accepts characteristics for knowledge articulated by Popper in his controversial epistemological model.

Research methods talk : information is information

June 9, 2009 at 8:05 am | Posted in work | Leave a comment
Tags: ,

I gave a brief talk to a small group of fellow students at a research methods meeting in my department last Monday. My topic for discussion is below.

Comments centred around how my work into a data repository for the sciences closely mirrored very traditional topics in library and information science : cataloguing, classification, metadata, scientific communication and technologies for sharing information.

A trend exists in biology towards sharing experimental data via community-approved repositories. Data sharing is intended to encourage data re-use, and the ethos is being promoted by Government and Research Councils as the way forward for academic research in the future.

I have been investigating the characteristics of datasets submitted a biological data repository called Arrayexpress. I have looked at nearly 2000 records released in 2004-2008, and compiled several data publication measures including timeliness, quality, and links to peer-reviewed articles. Datasets with bibliographic links to articles in peer-reviewed journals have also been investigated for citation effects.

I will briefly discuss my methodology, some problems in collecting this type of data, and share a few early results.

I did not meet my spirit animal

November 6, 2008 at 10:07 am | Posted in plan, work | Leave a comment
Tags:

Craft and Creativity workshop, Part 1.
A City University research student course

Yesterday I attended the first of a two-part course run by the University entitled ‘Craft and creativity’.

The first part, ‘Planning, Structuring, Researching, and Managing Your PhD’ did exactly what it said on the tin. I found the technique of creating questions and sub-questions that will form thesis chapters to be particularly useful.

My notes are below:

Free Image Hosting at www.ImageShack.us

Free Image Hosting at www.ImageShack.us

The afternoon was dedicated to the creativity part. Rather than dropping acid and talking a walk through our subconscious, the workshop facilitator, John Hands, guided us through a simple meditation technique designed to release the creative tiger within.

It wasn’t quite my bag. The product of my meditative adventure is depicted below. It makes next to no sense.

Free Image Hosting at www.ImageShack.us

My original PhD research proposal

November 5, 2008 at 8:38 am | Posted in plan, work | Leave a comment
Tags:

I wrote the original proposal for this project back in February 2008, under the lengthy and accommodating title, ‘Information in the biomedical sciences : organising data, transferring knowledge, and innovating from bench to bedside in the postgenomic era’.

For the full text, see the link below:

Original research proposal (PDF, 92, kB)

A thousand ways to say 'biomedical sciences'

November 4, 2008 at 9:49 am | Posted in plan, work | Leave a comment
Tags: ,

What do I mean by ‘biomedical sciences’? It will be important to define this term early on in my studies.

One way in which I can do this is to look at the organisational structure of Universities in the United Kingdom to see where departments researching biology, medicine and biomedicine-like topics, are situated.

The Research Assessment Exercise for 2001 lists around one hundred departments which were examined under the research title ‘Biological Sciences’. This title includes the following:

“Molecular, cellular, organismal and population biology of micro-organisms, plants and animals, including biochemistry and biotechnology.”

(Taken from here)

On closer inspection of institutional websites, there rarely seems to be a single department exclusively researching biological sciences.

Research and teaching at UK universities is organised at the highest level into Schools, Faculties or Divisions – the terminology is variable and probably historical in derivation. It is common for example to have a School of Life Sciences within which biomedical science-related subjects will lie.

An attempt to distinguish the biomedical science Schools though is hampered by universities which spread research and teaching between life/physical science areas and medicine/health-related subjects. At universities, the biomedical sciences are taught and researched between the two.

The next organisational separation is usually, although not always, Departments. From browsing UK university websites, there is high variability in naming for departments, and in the subject-specialty for that department. For example, there may be a Department of Biochemistry at one institution, and a Department for Molecular and Cellular Medicine at another.

The final organisational division is normally the research groups, which fall within a department and conduct work on highly specialized topics. Again, there is no hard and fast rule for nomenclature and research specialization, as far as I can see, in UK research groups.

I think it will be useful to perform a comprehensive survey of organisational structures and naming conventions for biomedical science research in the UK, based on information gleaned from university websites. The objectives of such a survey would be several-fold:

  1. To define the term ‘biomedical sciences’ according to research organisation at Higher education institutions in the UK
  2. To create a browsable resource for the major research Schools, Departments and groups for biomedical science in the UK, including links to individual web pages
  3. To investigate naming conventions for biomedical science departments in the UK, and to propose means for name authority control

Name authority control for research groups is as important as author name control. Science is a collaborative effort and the research group is a unit of collaboration for the scientific community.

Blog at WordPress.com. | Theme: Pool by Borja Fernandez.
Entries and comments feeds.

Follow

Get every new post delivered to your Inbox.