SN: Many metabolic pathways are curated working to connect these to biological processes #Biocuration2025
April 7, 2025 at 7:51 PM
SN: Many metabolic pathways are curated working to connect these to biological processes #Biocuration2025
Back from break for Parnal Joshi talking about contributions of cross-species function annotations to understanding uncharacterized human genes #Biocuration2025
April 8, 2025 at 4:09 PM
Back from break for Parnal Joshi talking about contributions of cross-species function annotations to understanding uncharacterized human genes #Biocuration2025
Q: How do we deal with issues and biases
A: You need to build a knowledgeable community of practice. You need informed users and tinkerers to make this work #Biocuration2025
A: You need to build a knowledgeable community of practice. You need informed users and tinkerers to make this work #Biocuration2025
April 7, 2025 at 6:53 PM
Q: How do we deal with issues and biases
A: You need to build a knowledgeable community of practice. You need informed users and tinkerers to make this work #Biocuration2025
A: You need to build a knowledgeable community of practice. You need informed users and tinkerers to make this work #Biocuration2025
MV: Attempt to mimic human literature curation with an algorithm with human in the loop to keep nonsense out #Biocuration2025
April 8, 2025 at 7:45 PM
MV: Attempt to mimic human literature curation with an algorithm with human in the loop to keep nonsense out #Biocuration2025
CH: Annual meeting in Cambridge in July 29-31 #Biocuration2025
April 9, 2025 at 3:18 PM
CH: Annual meeting in Cambridge in July 29-31 #Biocuration2025
Audience: Purpose of the cover letter and CV is to get you the interview. Work your network to get your CV in front of the right person. #Biocuration2025
April 9, 2025 at 6:55 PM
Audience: Purpose of the cover letter and CV is to get you the interview. Work your network to get your CV in front of the right person. #Biocuration2025
HM: Built a Neo4j database to back up the knowledge base. OLIVE = Ontology learning with integrated vector embeddings. Trying to make sure the ontologies they are building play well with others #Biocuration2025
April 7, 2025 at 7:18 PM
HM: Built a Neo4j database to back up the knowledge base. OLIVE = Ontology learning with integrated vector embeddings. Trying to make sure the ontologies they are building play well with others #Biocuration2025
AP: Using PubTator to mark up and filter papers to find those about under-curated genes that are in scope for the resource #Biocuration2025
April 9, 2025 at 3:01 PM
AP: Using PubTator to mark up and filter papers to find those about under-curated genes that are in scope for the resource #Biocuration2025
SF: Working with FORCE11 to standardize workflows across industries. Timing of DOI creation as an example DCN wants to wait until curation is done but Journals want the DOI before publication #Biocuration2025
April 9, 2025 at 2:34 PM
SF: Working with FORCE11 to standardize workflows across industries. Timing of DOI creation as an example DCN wants to wait until curation is done but Journals want the DOI before publication #Biocuration2025
Final keynote is from Sandra Orchard recipient of the lifetime achievement award. Introduction by Sonia Baylan #Biocuration2025
April 9, 2025 at 3:59 PM
Final keynote is from Sandra Orchard recipient of the lifetime achievement award. Introduction by Sonia Baylan #Biocuration2025
AH: Need to be thinking about the roles of validation and triage in moving things forward and fine tuning models #Biocuration2025
April 8, 2025 at 6:35 PM
AH: Need to be thinking about the roles of validation and triage in moving things forward and fine tuning models #Biocuration2025
WormBase is using AI tools to facilitate author driven curation #Biocuration2025
April 6, 2025 at 8:39 PM
WormBase is using AI tools to facilitate author driven curation #Biocuration2025
Panel - Start up cost is a barrier and shifts in the landscape mean you may need to start up repeatedly. Optimistic view: the AI companies will develop the tools and we can adapt them. #Biocuration2025
April 6, 2025 at 7:35 PM
Panel - Start up cost is a barrier and shifts in the landscape mean you may need to start up repeatedly. Optimistic view: the AI companies will develop the tools and we can adapt them. #Biocuration2025
RV: IEDB data, including disease data, are now in PRO, UniProtKB, and iPTMnet
These collaborations have also helped to find and correct errors #Biocuration2025
These collaborations have also helped to find and correct errors #Biocuration2025
April 7, 2025 at 9:00 PM
RV: IEDB data, including disease data, are now in PRO, UniProtKB, and iPTMnet
These collaborations have also helped to find and correct errors #Biocuration2025
These collaborations have also helped to find and correct errors #Biocuration2025
The registration deadline for #Biocuration2025 is fast approaching. Registration closes February 28th www.stowers.org/events/biocu...
February 12, 2025 at 9:49 PM
The registration deadline for #Biocuration2025 is fast approaching. Registration closes February 28th www.stowers.org/events/biocu...
#Biocuration2025 Just coming back from breakout sessions. Lots of cautious optimism. Hope that AI can support and evolve the work of biocurators. Stress the need for validation.
April 6, 2025 at 5:12 PM
#Biocuration2025 Just coming back from breakout sessions. Lots of cautious optimism. Hope that AI can support and evolve the work of biocurators. Stress the need for validation.
KAK: Use archetypes to make searches and linking more efficient. Archetypes then link to the various forms. #Biocuration2025
April 8, 2025 at 8:51 PM
KAK: Use archetypes to make searches and linking more efficient. Archetypes then link to the various forms. #Biocuration2025
PT: Selecting independent characteristics to capture the specific functions and not the downstream steps in the pathway. Moving from the exact function in a paper to a global view of function #Biocuration2025
April 8, 2025 at 2:43 PM
PT: Selecting independent characteristics to capture the specific functions and not the downstream steps in the pathway. Moving from the exact function in a paper to a global view of function #Biocuration2025
First keynote by Sam Steven's talking about the emerging field of imageomics and its application to measuring traits of beetles. #Biocuration2025
April 7, 2025 at 2:36 PM
First keynote by Sam Steven's talking about the emerging field of imageomics and its application to measuring traits of beetles. #Biocuration2025
HC: Can LLMs get structured data? OntoGPT can but will often extract things that look like ontology. OntoGPT has been used to get data for Medical Action Ontology, Micronutrient information, Pathology reports #Biocuration2025
April 7, 2025 at 7:28 PM
HC: Can LLMs get structured data? OntoGPT can but will often extract things that look like ontology. OntoGPT has been used to get data for Medical Action Ontology, Micronutrient information, Pathology reports #Biocuration2025
Recommendation from the audience to limit search to industry and then add a specific term like 'ontology' to the search #Biocuration2025
April 9, 2025 at 6:27 PM
Recommendation from the audience to limit search to industry and then add a specific term like 'ontology' to the search #Biocuration2025
AM: Focus on biodiversity data in PMC. Incorporates the use of many ontologies, vocabularies, and identifiers #Biocuration2025
April 8, 2025 at 7:28 PM
AM: Focus on biodiversity data in PMC. Incorporates the use of many ontologies, vocabularies, and identifiers #Biocuration2025
Next question - Is GO using AI? A: Until recently the barrier has been too high but things are changing. The presence of @cmungall.bsky.social is missed #Biocuration2025
April 5, 2025 at 4:15 PM
Next question - Is GO using AI? A: Until recently the barrier has been too high but things are changing. The presence of @cmungall.bsky.social is missed #Biocuration2025
PT: PAN-GO paper applied the evolutionary model at scale to human genes. Essential to have biocuration to do this. Both the primary lit. based curation and the construction of evolutionary models #Biocuration2025 pubmed.ncbi.nlm.nih.gov/40011791/
A compendium of human gene functions derived from evolutionary modelling - PubMed
A comprehensive, computable representation of the functional repertoire of all macromolecules encoded within the human genome is a foundational resource for biology and biomedical research. The Gene O...
pubmed.ncbi.nlm.nih.gov
April 8, 2025 at 2:39 PM
PT: PAN-GO paper applied the evolutionary model at scale to human genes. Essential to have biocuration to do this. Both the primary lit. based curation and the construction of evolutionary models #Biocuration2025 pubmed.ncbi.nlm.nih.gov/40011791/
PT: Next step was keyword classifications at Swiss-Prot. This then expanded to species specific classifications. Standardized but lots of maintenance needed. #Biocuration2025
April 8, 2025 at 2:13 PM
PT: Next step was keyword classifications at Swiss-Prot. This then expanded to species specific classifications. Standardized but lots of maintenance needed. #Biocuration2025