drdozer’s blog

myExperiment: A MySpace for the...

2007-09-11T08:15:54Z

myExperiment: A MySpace for the self-serving bioinformatician (Carole Goble) I hurt. I have a hang-over in my eyebrows, nose, ears, toes,... Don't drink sour beer. Just say NO. Carole certiainly knows the art of swearing in the right places duri...

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OXL - part of ondex, the...

2007-09-10T15:21:09Z

OXL - part of ondex, the 'native' xml format for post-integration data. Do xml dumbly - glue all links in-place --note: how does it handle cycles then? Seems like a thinly-veiled excuse to give an ondex talk, showing pictures it draws. Emperor's...

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Analysis of Integrated biomolecular...

2007-09-10T15:05:05Z

Analysis of Integrated biomolecular somethings - CABiNET Same old slide about integrating networks - different ones, different types, with external kinds of data. CABiNET - semi-automated network processing pipeline e.g. to identify funcitonal i...

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VINEdb: a data warehouse for...

2007-09-10T14:40:56Z

VINEdb: a data warehouse for integration and interactive exploration of life science data Data warehouse - project underlying data and its complexity in an effective way to the end user - deeper insights into complex biological systems Is he go...

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Exploring PSI-MI XML Collections using...

2007-09-10T14:25:14Z

Exploring PSI-MI XML Collections using describeX XML is widely used by bioinformatics community. They claim the flexibility of xml introduces heterogenity. I'd prefer to think that it allowed latent hetergenity to be exposed. DescribeX builds xm...

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Data Linkage Graph: computation...

2007-09-10T13:39:30Z

Data Linkage Graph: computation, querying and knowledfe discovery of life science data. Databases in sciences are structured. Databases are organised by domains. --note: of course, this is wrong on both counts - they are badly structured and have...

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BioXMash: XML data summaries for...

2007-09-10T13:17:24Z

BioXMash: XML data summaries for user-driven data integration. Long-term goal: data integration for end-users. XML-based. Selection/projection on trees. Interactive querying. Indexing pseudo-off-line (e.g. index while at lunch, then have interac...

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Community-based linking of biological...

2007-09-10T12:51:00Z

Community-based linking of biological network resources: Database, Formats and Tools To understand your data, you do need to view it in context. Use the kind of network that will be relevant to your question. How to find Networks? Want structure...

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A methodology for comparative functinoal...

2007-09-10T12:19:43Z

A methodology for comparative functinoal genomics. (e-Fungi, Mike Cornell) Sequence analysis of 36 (to be 48) fungal genomes. Blasts, alignments, clusters, phylogeny, cellular localization, ... This seems to be old-school bioinformatics done wit...

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Keynote 1: Understanding interactomes by...

2007-09-10T12:08:09Z

Keynote 1: Understanding interactomes by data integration Soren Brunak Protein-protein interaction networks - topology, temporal, phenotypic aspects. Text mining, predict 'disease genes'. Starting with the cell cycle (an intrinsically dynamic sy...

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