The purpose of this survey is to ask you if there are any projects, such as manual annotation, that would be disrupted by the updates at the i5k Workspace.
INSTRUCTIONS: - For each organism below, list when you will have completed manual annotation on genome assembly version 1, and we can therefore move the assembly from version 1 to version 2. For example, if you plan on conducting a manual annotation project Athalia rosae assembly Arosv1.0 until December 1st, 2018, list December 2nd, 2018, under "Athalia rosae". We will use the latest completion date as our estimate for moving the assembly to version 2. - Use the Comments box below if you have any additional comments or concerns - for example, some genome coordinators may not want the i5k Workspace resources to be updated at all. - COMPLETE BY OCTOBER 23rd, 2018.
Manual annotation efforts will be disrupted in the following ways:
1. We are only migrating Official Gene Sets, and annotations from NCBI's eukaryotic annotation pipeline. Other tracks will NOT be migrated.
2. As with any genome assembly update, gene models built on the previous assembly may not be valid on the new assembly - for example, if the underlying scaffold has been significantly changed. Our remap procedure only keeps models that retain 100% of their transcript sequence. Therefore, it's expected that at least some gene models from the previous OGS will need to be eliminated. We will strive to provide an additional 'track' on the genome browser with OGS models that did not make it into the OGS, in case annotators want to revise and improve these models.
3. We are NOT migrating RNA-Seq tracks to the new assembly version - we currently don't have the manpower for this. We hope to supply our own RNA-Seq tracks based on available RNA in SRA in the future, but we are still working out the kinks of this pipeline.