Difference between revisions of "User:Boris"
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* [[User:Boris/Temp/APB]] - '''Applied Bioinformatics page hierarchy''' | * [[User:Boris/Temp/APB]] - '''Applied Bioinformatics page hierarchy''' | ||
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*[[User:Boris/Temp]] | *[[User:Boris/Temp]] | ||
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*[[Cargo Cult Bioinformatics]] | *[[Cargo Cult Bioinformatics]] | ||
*[[VMD]] tutorial(s) | *[[VMD]] tutorial(s) | ||
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| + | *[[Aminoacid tutorial]] | ||
*[[Stereo Vision]] tutorial | *[[Stereo Vision]] tutorial | ||
| − | + | *[[Database Identifiers]] | |
| − | + | *[[Integrated_Exam_Questions]] | |
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====Page templates==== | ====Page templates==== | ||
Revision as of 16:44, 25 December 2012
Boris Steipe (course coordinator)
- Medical Sciences Building, Room 5368
- Toronto, Ontario M5S 1A8
- T: 416-946-7741
- E: boris.steipe@utoronto.ca
Contents
... under development
- User:Boris/Temp/APB - Applied Bioinformatics page hierarchy
- Cargo Cult Bioinformatics
- VMD tutorial(s)
- R tutorial
- Aminoacid tutorial
- Stereo Vision tutorial
- Database Identifiers
- Integrated_Exam_Questions
Page templates
(Copy Template location from there to edit.)
Original sidebar links
- Main_Page
- BCH441Hwiki:Community_portal
- Current_events
- Special:RecentChanges
- Special:Random
- Help:Contents
- What links here ... try ctrl- option - j
- Related Changes ... try ctrl- option - k
- Special:Upload
- Special:SpecialPages
Quick resources
Additional BIO Topics
- Must make note to alert students who run LINUX boxes that some assignment tasks can be conveniently Perlified.
- http://www.biosolveit.de/PoseView/
Additional CSB Topics
http://www.elsevier.com/wps/find/bookdescription.cws_home/707460/description
- Elsevier - Introducing Computational Systems Biology
- Elsevier - Enabling Information and Integration Technologies for Systems Biology:
- Elsevier - Databases for Systems Biology.
- Elsevier - Natural Language Processing and Ontology-enhanced Biomedical Literature Mining for Systems Biology
- Elsevier - Integrated Imaging Informatics
- Elsevier - Simpathica: A Computational Systems Biology Tool within the Valis Bioinformatics Environment
- Elsevier - Standards, Platforms and Applications
- Elsevier - Foundations of Biochemical Network Analysis and Modeling
- Elsevier - Introduction to Computational Models of Biochemical Reaction Networks
- Elsevier - Biological Foundations of Signal Transduction and the Systems Biology Perspective
- Elsevier - Reconstruction of Metabolic Network from Genome Information and Its Structural and Functional Analysis
- Elsevier - Integrated Regulatory and Metabolic Models
- Elsevier - Computer Simulations of Dynamic Networks
- Elsevier - A Discrete Approach to Network Modeling
- Elsevier - Gene Networks: Estimation, Modeling and Simulation
- Elsevier - Computational models for circadian rhythms: Deterministic versus stochastic approaches
- Elsevier - Multi-Scale Representations of Cells and Emerging Phenotypes
- Elsevier - Multistability and Multicellularity: Cell Fates as High-dimensional Attractors of Gene Regulatory Networks
- Elsevier - Spatio-Temporal Systems Biology
- Elsevier - Cytomics—from cell states to predictive medicine
- Elsevier - The IUPS Physiome Project: Progress and Plans.
Additional APB Topics
- GPU and Cloud computing
- CSS ( http://www.csszengarden.com/ , http://en.wikipedia.org/wiki/Help:User_style , )
- REST as API. Programming example: SADI or BOLD (Barcode of life).
- GO annotation in http and R
Bioinformatics
| Biological foundations | Data | Analysis | Interpretation | |
|---|---|---|---|---|
| Sequences | ||||
| Structures | ||||
| Evolution | ||||
| Systems |
Utilities
PediaPress mwlib mediaWiki → eBook extension/software.
Here is the path to the pmid document repository to provide direct links to PDF's for logged in users. Every user needs to have this section in their User page, the Template:pubmed uses the userfunctions, parserfunctions, and lst extensions to pull the section pdf_repository_path from a user's page and construct a link to the repository. Naturally, this works only for pmid's for now.
biochemistry.utoronto.ca/steipe/abc/376CEB52AF96EA94
