Close
Editor 鈥� Barbara Kramarz
Many thanks and farewell to Dr Milagros Rodr铆guez-L贸pez
Dr听Milagros听Rodr铆guez-L贸pez,听EMBL-EBI, was working on the听ARUK-宅男视频 neuroinflammation project from听February听迟颈濒濒听听2019. Throughout this collaboration Mila worked closely with Barbara on GO annotation of, firstly, microglial proteins implicated in Alzheimer鈥檚 disease, and then on the听endothelial junction and transport proteins important for the听blood-brain barrier processes. Mila鈥檚 curation work also led to ontology revisions and updates of 鈥榗ell-cell adherens鈥�-related GO terms.听We thank Mila for her contributions to this project and we wish her every success in the听future.
Blood-brain barrier annotation progress
Mila completed the听GO annotation of the 24 鈥榚ndothelial connection鈥� proteins and 10 鈥榬eceptor-mediated transport鈥� proteins, listed on our听webpage, resulting in 317 and 177 GO annotations, respectively. In addition, Mila curated 8 out of 47 鈥榮olute carrier-mediated transport鈥� proteins contributing 72 annotations, whereas Barbara has contributed annotations for 10 more proteins from this same list resulting in 78 annotations. Barbara has also completed the听annotation of 鈥榠on transport鈥� proteins, resulting in 362 annotations for 16 proteins. Barbara is continuing the听curation of the听remaining 鈥榮olute carrier-mediated transport鈥� proteins听(data from QuickGO, accessed 1st听March 2020).听
Annotation of microRNAs regulating interleukins
Shirin听has been annotating microRNAs that regulate the听expression of interleukins since October 2019. Throughout this project Shirin has curated a total of 59 papers, identified in听听and through听听searches, and contributed over 450 annotations for more than 44 microRNAs.
New microRNA annotation projects
We are pleased to welcome two MSc students, Katherine Thurlow and Sandra De Miranda Pinheiro. Katherine will be using GO to capture knowledge about microRNAs with roles in the blood-brain barrier, whereas Sandra will be annotating microRNAs that regulate the听APP听and听BACE1听Alzheimer鈥檚 disease genes.
ARUK-UCL Annotation Statistics
In total,听听projects, including the听GO annotation of proteins interacting with amyloid-beta and tau, microglial proteins and blood-brain barrier proteins, as well as microRNAs regulating the听expression of proteins implicated in Alzheimer鈥檚 disease, have so far resulted in 10,252 annotations for 1,651 distinct gene products, including: 8,192 annotations for 1,332 proteins; 1,673 annotations for 297 non-coding RNAs (mainly microRNAs); and 387 annotations for 22 protein-containing complexes (data from QuickGO, accessed 1st听March 2020).听
Meetings attended
Shirin was awarded a Short Term Scientific Mission (STSM) grant from the听European Cooperation In Science and Technology () organisation, which allowed her to travel to in southern Italy for a week-long knowledge exchange meeting with Dr Simona Panni. During this time Simona trained Shirin in capturing molecular interactions between microRNAs and their mRNA targets using the IntAct curation tool, whereas Shirin shared with Simona her knowledge about GO annotation of microRNAs, and trained Simona in using the听Gene Ontology Annotation (GOA) curation tool.
Ruth organised a small meeting at 宅男视频 in January, funded by the听听COST project, which focused on developing guidelines for the curation of DNA binding transcription factors (dbTFs) and reviewing the GO annotation of 400 possible human dbTFs. In February, Ruth presented the progress of this project at the Universit脿 della Calabria, Rende, Italy. At this meeting several researchers agreed to help to complete this task, which would lead to a 2020 list of all known human dbTfs being associated with the GO term听听DNA-binding transcription factor activity.听
Introduction to Bioinformatics and GO workshop
24th听- 25th听June 2020
If you would like to attend our popular free two-day workshops, please use the听听site to register. This workshop is funded by听听and provides an overview of several biological knowledgebases, as well as an introduction to GO and functional analysis tools.