Lectures and Seminars in the course
Lecture 1, 9 september 2004, By Dr. Ir. Fons J. Verbeek
The first lecture in this course introduces the key entities found in Life Sciences information systems. It focusses on the most important information resources in moluecular genetics en biology. The information systems that will be reviewed in this course are breifly mentioned so as to get the flavour of the topics that will be discussed.
In support of some basic knowledge on (molecular) biology a primer in molecular genetics is made available.
Handout of lecture 1: PDF
Primer in Molecular genetics: PDF
Lecture 2, 16 september 2004, By Dr.Nies Huijsmans
In this lecture two basic units of information are introduced, i.e. molecules and images. Once the components of a molecule are established, it can be visualised by molecular graphics. It is explained how this relates to information found in molecular databases and how visualisation of molecular information from molecules is realised. Next, the topic of retrieving information from images is discussed. Features relevant to search are discussed with structure of image databases.
Postphoned...
Lecture 3, 23 september 2004, By Dr. Erwin Bakker
In this lecture the acquisition of genetic information for comparative genomic hybridization is explained as it is present in the framework of the DIAL project. LIACS is a participant of within this DIAL project. Genomic data are obtained by microarrays and the storage and retrieval of such data is discussed.
Handout of lecture 2a: PDF
Handout of lecture 2b: PDF
Lecture 4, 30 september 2004, By Dr. Ir. Fons J. Verbeek
In the second lecture the background of a spatio-temporal information system is explained, i.e. the atlas of zebrafish development.
Handout of lecture 3a: PDF
Handout of lecture 3b: Not availvalble yet.
Lecture 5, 7 october 2004, Fons J. Verbeek Moderator
GermOnLine paper discussed and presented by G.Schiopu : PDF
GenePaint paper discussed and presented by D.Geene & H.van der Spek : PDF
GelBank paper discussed and presented by A.Nezhinsky & T. Steenbergen : PDF
RNAiDB paper discussed and presented by M. Kester : PDF
Lecture 6, 14 october 2004, Fons J. Verbeek Moderator
UMLS paper discussed and presented by L. Wolf : PDF
Go (Gene Ontology) paper discussed and presented by Y. Bei : PDF
e-MSD & SMART papers discussed and presented by D. Schipper & M. Altorf : PDF
Lecture 7, 28 october 2004, Fons J. Verbeek Moderator
Pathbase paper discussed and presented by A. Khoesial : PDF
Genew papers discussed and presented by M. Jakobik : PDF
GoA paper discussed and presented by A. Schuiteman : PDF
Lecture 8, 4 novermber 2004, Erwin Bakker Moderator
EMBL Nucleotide database paper discussed and presented by S. van Kilsdonk : PDF
Human Protein Ref. database paper discussed and presented by W.W. Wong: PDF
Lecture 9, 11 novermber 2004, Erwin Bakker Moderator
ENSMBL paper(s) discussed and presented by W. Rossi: PDF
PERP paper discussed and presented by S. Suznjevic: PDF
DiAlign papers discussed and presented by Q. Li & K. Ye : PDF
Lecture 10, 18 novermber 2004, By Prof Dr. Xiaohui Lui
Introuction by Prof. Xiaohui Liu
Presentation by Dr. Karl Fraser
Presentation by Dr. Stephen Smith
Presentation by Dr. Allen Tucker
Presentation by Dr. Veronica Vinciotti
Handout of lecture 10: PDF
Lecture 11, 25 novermber 2004, By Prof Dr. Xiaohui Lui
See papers in the papers-section.
Lecture 12, 2 December 2004, By Fons Verbeek
12 a: Information Integration, a short introduction.
12 b: Netherlands' BioInformatics Centre, the BioASP service provider.
Handout of lecture 12a: PDF
Handout of lecture 12b: PDF