The following discussion is closed. Please do not modify it. Subsequent comments should be made in a new section. A summary of the conclusions reached follows.
This bot will be an extension of the ProteinBoxBot project, shifting focus to taxa, gene, and protein items for microbial species.
We plan to load data for the 120 Bacterial Reference Sequences designated by NCBI as the highest quality and most relevant bacterial genome sequences available.
Using the same core infrastructure as the ProteinBoxBot, MicrobeBot will import microbial genetic data to Wikidata from NCBI and UniProt using MyGene.info. The data model is illustrated in Figure 1. Figure 1. A microbial gene item in Wikidata (blue) and the structure of its linkage (through QIDs and properties) to the organism item of origin (green) and the protein item it encodes (orange). Solid black lines indicate WD Properties. We have developed the bot in Python and, using this structured model, we have imported the genetic data for 2 strains of Chlamydia trachomatis, totaling 1738 genes and 1741 proteins. The goal is to load, pending community support and approval, the gene and protein items for all of the 120 Bacterial Reference Sequences. This would aggregate the genetic data for the most studied and relevant microbial genomes into integrated and structured Wikidata framework, providing microbial and human researchers a novel tool for making meaningful connections between all genetic and health related entities in Wikidata (i.e. hosts, pathogens, drugs, diseases, etc...).
Just to clarify, there was no attempt to create or edit Wikidata items with this bot. The block occurred as I was attempting to populate the user page with information on the bot tasks, while logged into the newly created Microbebot account. I realize now I should have been editing that page from my own user account. Putmantime (talk) 17:01, 17 November 2015 (UTC)[reply]
This bot is certainly not a spam bot. It would be helpful to know why the AbuseFilter flagged it, though. The work of User:ProteinBoxBot here has been immensely useful, and extending it to microbial genetics makes a lot of sense, so I am all in favour of some test runs. --Daniel Mietchen (talk) 23:47, 17 November 2015 (UTC)[reply]
I have generated these 20 (10 protein and 10 gene) example items with the MicrobeBot. These edits were made with the ProteinBoxBot account (using MicrobeBot code) . As outlined in Figure 1 the genes and protein items are linked via the encodes (P688) and encoded by (P702) properties, and all are linked to the strain they were sequenced from via the found in taxon (P703) property.
Approved--Ymblanter (talk) 19:41, 30 November 2015 (UTC)
