Difference between revisions of "Gene Page"
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* Overview | * Overview | ||
+ | |||
-- Keep WormBase ID | -- Keep WormBase ID | ||
-- From ce 1 and 2 -- move to history? references? | -- From ce 1 and 2 -- move to history? references? | ||
-- Provisional description -- legacy | -- Provisional description -- legacy | ||
-- Floating Box, how to link to protein info? | -- Floating Box, how to link to protein info? | ||
− | -- Action | + | -- Action Items: ce 1 and 2 -> Make sure citations are expanded. History for now. |
+ | Kimberly and Ranjana 2 look into proper placement of provisional description. | ||
Make Sequence Widget appear on clicking sequence link in floating box. | Make Sequence Widget appear on clicking sequence link in floating box. | ||
* Location | * Location | ||
+ | |||
-- explicitly note a genomic position | -- explicitly note a genomic position | ||
-- call genomic view? | -- call genomic view? | ||
+ | -- Suggestion to provide images that give genomic/chromosomal context | ||
-- Action Item: Name with something more descriptive | -- Action Item: Name with something more descriptive | ||
* History | * History | ||
+ | |||
-- actually curation history; unclear what it is. | -- actually curation history; unclear what it is. | ||
-- rename as database history? check presentation options on sidebar listing | -- rename as database history? check presentation options on sidebar listing | ||
Line 21: | Line 26: | ||
-- selective viewing; details to curators only? | -- selective viewing; details to curators only? | ||
− | * | + | * Expression |
+ | |||
+ | -- Tissues with color has expression (color standard representation in WormAtlas). | ||
+ | -- Descriptive statements needed - TH | ||
+ | -- List anatomy terms associated with the expression; | ||
+ | -- Action Items: Chris to provide legend for color/tissue correspondence. Work on "conservative" and "liberal" info representation | ||
+ | Move chronogram further down. | ||
+ | Provide tooltip for expression cluster link; Wen to provide description. | ||
+ | Microarray results -> Microarray Spot ID(?) | ||
+ | Move topology Map right below Expression cluster | ||
+ | via Anatomy_function -> Experiments in table column headers | ||
+ | General cleanup | ||
+ | |||
+ | * Gene Ontology | ||
+ | |||
+ | -- Simplify info representation; focus on term less the method | ||
+ | -- Make into sortable table? | ||
+ | -- Action Items: Look into GO details page for ideas for rendering table; See SGDs | ||
+ | |||
+ | * Genetics | ||
+ | |||
+ | -- Pretty straight forward | ||
+ | -- Action Items: Move strains to the top. | ||
+ | |||
+ | * Homology | ||
+ | |||
+ | -- Need feedback from Hinxton (left). | ||
+ | -- Protein domains - used to be part of function; should it be there? | ||
+ | -- Action Item: Move Protein Domains to the bottom. | ||
+ | |||
+ | |||
+ | * Interaction | ||
+ | |||
+ | -- Action Items: Put data in table | ||
+ | Evaluate other tools for graphic viewing (long term) | ||
+ | |||
+ | * Phenotype | ||
+ | |||
+ | -- Action Item: Collapse not observed: especially RNAi; | ||
+ | emphasize NOT in label; | ||
+ | use term "perturbations" rather than "mutation" for RNAi | ||
+ | move to WB2 data tables; move Phenotype column in RNAi to first | ||
+ | |||
+ | * Reagents | ||
+ | |||
+ | -- Sage & Matching cDNAs: toggle list? | ||
+ | -- Action Item: clean up empty fields | ||
+ | Relabel Microarray probes -> Microarray oligo sets | ||
+ | Remove "Found" in data lines (through out site). | ||
+ | Move cDNA and Antibody up. | ||
+ | Group primer pairs and oligos | ||
+ | |||
+ | * References | ||
+ | |||
+ | -- Working to separate via categories | ||
+ | -- Export citations? -- Not yet | ||
+ | |||
+ | * Sequences | ||
+ | |||
+ | -- Need comments from Hinxton -- esp. re: Other Sequences | ||
+ | -- Action Items: Rearrange table to reflect Central Dogma | ||
+ | Caltech to make other sequences descriptions. | ||
+ | |||
+ | * Alignments | ||
+ | |||
+ | -- Action Item: Better formatting; note ESTs |
Latest revision as of 18:20, 14 February 2011
Meeting minutes, Gene Page review:
- Overview
-- Keep WormBase ID -- From ce 1 and 2 -- move to history? references? -- Provisional description -- legacy -- Floating Box, how to link to protein info? -- Action Items: ce 1 and 2 -> Make sure citations are expanded. History for now. Kimberly and Ranjana 2 look into proper placement of provisional description. Make Sequence Widget appear on clicking sequence link in floating box.
- Location
-- explicitly note a genomic position -- call genomic view? -- Suggestion to provide images that give genomic/chromosomal context -- Action Item: Name with something more descriptive
- History
-- actually curation history; unclear what it is. -- rename as database history? check presentation options on sidebar listing -- call Database history? -- Try first -- selective viewing; details to curators only?
- Expression
-- Tissues with color has expression (color standard representation in WormAtlas). -- Descriptive statements needed - TH -- List anatomy terms associated with the expression; -- Action Items: Chris to provide legend for color/tissue correspondence. Work on "conservative" and "liberal" info representation Move chronogram further down. Provide tooltip for expression cluster link; Wen to provide description. Microarray results -> Microarray Spot ID(?) Move topology Map right below Expression cluster via Anatomy_function -> Experiments in table column headers General cleanup
- Gene Ontology
-- Simplify info representation; focus on term less the method -- Make into sortable table? -- Action Items: Look into GO details page for ideas for rendering table; See SGDs
- Genetics
-- Pretty straight forward -- Action Items: Move strains to the top.
- Homology
-- Need feedback from Hinxton (left). -- Protein domains - used to be part of function; should it be there? -- Action Item: Move Protein Domains to the bottom.
- Interaction
-- Action Items: Put data in table Evaluate other tools for graphic viewing (long term)
- Phenotype
-- Action Item: Collapse not observed: especially RNAi; emphasize NOT in label; use term "perturbations" rather than "mutation" for RNAi move to WB2 data tables; move Phenotype column in RNAi to first
- Reagents
-- Sage & Matching cDNAs: toggle list? -- Action Item: clean up empty fields Relabel Microarray probes -> Microarray oligo sets Remove "Found" in data lines (through out site). Move cDNA and Antibody up. Group primer pairs and oligos
- References
-- Working to separate via categories -- Export citations? -- Not yet
- Sequences
-- Need comments from Hinxton -- esp. re: Other Sequences -- Action Items: Rearrange table to reflect Central Dogma Caltech to make other sequences descriptions.
- Alignments
-- Action Item: Better formatting; note ESTs