Difference between revisions of "Project ideas"
Line 3: | Line 3: | ||
Venn diagrams present a very popular method to display list comparisons. [[http://bioinfo.genotoul.fr/jvenn/index.html Jvenn]] is an interactive Venn diagram viewer written in JavaScript. The objective of this project would be to use the code base of Jvenn to make it compatible with BioJS2.0. <br> |
Venn diagrams present a very popular method to display list comparisons. [[http://bioinfo.genotoul.fr/jvenn/index.html Jvenn]] is an interactive Venn diagram viewer written in JavaScript. The objective of this project would be to use the code base of Jvenn to make it compatible with BioJS2.0. <br> |
||
Literature: [http://www.ncbi.nlm.nih.gov/pubmed/?term=jvenn%3A+an+interactive+Venn+diagram+viewer jvenn: an interactive Venn diagram viewer] <br> |
Literature: [http://www.ncbi.nlm.nih.gov/pubmed/?term=jvenn%3A+an+interactive+Venn+diagram+viewer jvenn: an interactive Venn diagram viewer] <br> |
||
− | Mentor: |
+ | Mentor: PP2_CS_2014 mentors <br> |
Students: 2 |
Students: 2 |
||
[[File:Jvenn.png | 500px | center | Jvenn example]] |
[[File:Jvenn.png | 500px | center | Jvenn example]] |
||
Line 45: | Line 45: | ||
* [https://www.jsbi.org/pdfs/journal1/GIW00/GIW00F07.pdf Wong L. (2000) Visualization and manipulation of pedigree diagrams. Genome Informatics.] |
* [https://www.jsbi.org/pdfs/journal1/GIW00/GIW00F07.pdf Wong L. (2000) Visualization and manipulation of pedigree diagrams. Genome Informatics.] |
||
* [http://en.wikipedia.org/wiki/Pedigree_chart Wikipedia] |
* [http://en.wikipedia.org/wiki/Pedigree_chart Wikipedia] |
||
− | Mentor: |
+ | Mentor: PP2_CS_2014 mentors <br> |
Students: 2 |
Students: 2 |
||
[[File:Pedigree chart.png | 300px | center | Pedigree chart]] |
[[File:Pedigree chart.png | 300px | center | Pedigree chart]] |
||
+ | |||
+ | ==Sub-cellular localization in a cell== |
||
+ | Archaea, Bacteria and Eukaryota form the three domains of life. Eukaryotic cells contain a nucleus and other membrane-bound organelles. The cells of archaea and bacteria in contrast are formed by a single compartment that is surrounded by the plasma membrane (Gram-negative bacteria have an additional outer membrane). The objective of this project is to visualize biological cells and highlight by a user selected sub-cellular compartments in a way that they stand out from the un-selected ones. |
||
+ | Similar idea: [http://compartments.jensenlab.org/Search The Compartments database] |
||
+ | Mentor: PP2_CS_2014 mentors <br> |
||
+ | Students: 2 |
||
+ | |||
+ | [[File:Compartments.png | 300px | center | Pedigree chart]] |
Revision as of 14:59, 11 November 2014
Contents
Sequence Logo Viewer
Venn diagrams present a very popular method to display list comparisons. [Jvenn] is an interactive Venn diagram viewer written in JavaScript. The objective of this project would be to use the code base of Jvenn to make it compatible with BioJS2.0.
Literature: jvenn: an interactive Venn diagram viewer
Mentor: PP2_CS_2014 mentors
Students: 2
Protein viewer
Mentor: Björn Grüning (Galaxy) gruening. (at) .informatik.uni-freiburg.de
Students: 2
Chemical Viewer
Mentor: Björn Grüning (Galaxy) gruening. (at) .informatik.uni-freiburg.de
Students: 2
Graph Viewer
Mentor: Björn Grüning (Galaxy) gruening. (at) .informatik.uni-freiburg.de
Students: 2
Gene Cluster Viewer
Mentor: Björn Grüning (Galaxy) gruening. (at) .informatik.uni-freiburg.de
Students: 2
Dot-Bracket Notation
Mentor: Björn Grüning (Galaxy) gruening. (at) .informatik.uni-freiburg.de
Students: 2
Pedigree Chart Visualization
A pedigree chart is a simple and easy to read diagram showing the occurrence and appearance or phenotypes of a particular gene in an organism and its ancestors. Pedigrees use a standardized set of symbols:
- squares: males
- circles: females
- diamonds: the sex of the person is unknown
- filled-in (darker) symbol: someone with the phenotype in question
- shaded or half-filled symbol: heterozygotes
- horizontal and a vertical line: connects parents to their offspring
- ....
Literature:
Mentor: PP2_CS_2014 mentors
Students: 2
Sub-cellular localization in a cell
Archaea, Bacteria and Eukaryota form the three domains of life. Eukaryotic cells contain a nucleus and other membrane-bound organelles. The cells of archaea and bacteria in contrast are formed by a single compartment that is surrounded by the plasma membrane (Gram-negative bacteria have an additional outer membrane). The objective of this project is to visualize biological cells and highlight by a user selected sub-cellular compartments in a way that they stand out from the un-selected ones.
Similar idea: The Compartments database
Mentor: PP2_CS_2014 mentors
Students: 2