Bioinformatician, PhD interested in ribosome profiling for studying translation and discovering novel proteoforms; gene annotation; RNAomics
Cork, Ireland
Joined February 2018
- Tweets184
- Following192
- Followers195
- Likes408
Increase the Availability of Schengen Visa Appointments in Ireland chng.it/7YzPtwyM via @Change
Alla Fedorova retweeted
New paper from Gab, myself,
Éric and Jean-Phillipe.
Here we conduct a metazoan scale phylogenomic analysis of intrinsic apoptotic actors and show divergence across metazoa.
academic.oup.com/evlett/adva…
Alla Fedorova retweeted
New multi-institute £5.5million @wellcometrust funded PARADIGM project to improve diagnosis in rare disease. It will couple functional genomics data with clinical and bioinformatics expertise to empower diagnosis and discovery in genomic medicine paradigmgenomics.org/
Alla Fedorova retweeted
Ribo-Seq has unearthed thousands of fascinating cases of translation complexity over the last decade. Through the exploration of Ribo-Seq datasets it became clear that a more accurate representation is required to help us better understand this complexity. #Translation #RiboSeq
Ribosome Decision Graphs for the Representation of Eukaryotic RNA Translation Complexity biorxiv.org/cgi/content/shor… #biorxiv_genomic
Alla Fedorova retweeted
Ribosome Decision Graphs for the Representation of Eukaryotic RNA Translation Complexity biorxiv.org/cgi/content/shor… #biorxiv_genomic
Me on 18th October Wednesday (I live in Midleton and my apartment got flooded, and I was working from home)
Alla Fedorova retweeted
I'm recruiting for a 2-yr postdoc position in Deep Learning for cancer genomics (neoantigen prediction). Salary is €42,033 to €54,153 per annum and the application deadine is August 11th euraxess.ec.europa.eu/jobs/1…
Yesterday there was my PhD Viva.
It was more like a deep discussion about the work that was done and the field, many questions out of curiosity rather then tests, and I didn't feel like it's an actual exam. I also learned from it a lot.
Passed with minor corrections.
Alla Fedorova retweeted
Current stipends for PhD researchers in Ireland just aren't enough.
Ireland is ranked LAST GLOBALLY in terms of PhD Stipend to cost of living ratio, scoring 0.58. Meaning the current ANNUAL PhD stipend covers living costs for less than 7 months.
@DeptofFHed
#PGRsDeserveBetter
Alla Fedorova retweeted
In cancer, so many - here’s our example in #prostatecancer showing that mRNA-protein correlations at the proteome level get worse when disease progresses. Translational control is so much more important in also cancer than currently given credit for. nature.com/articles/s41467-0…
Alla Fedorova retweeted
1/ My favourite gene has 15 transcripts, which one should I use for further analysis? To report the position of variants? To design primers for? 🤯
This #tweetorial will show you how to filter and prioritise transcripts… 🧵
#genomics #bioinformatics #Ensembltraining 🧬
ALT Screenshot of the transcript table of the LAMA3 gene in the Ensembl genome browser
Alla Fedorova retweeted
Want to know which cell lines are most like ovarian cancer? Check out our latest publication, led by PhD student @aideen_mccabe
Investigating the suitability of in vitro cell lines as models for the major subtypes of epithelial ovarian cancer frontiersin.org/articles/10.…
In this work, manual annotation of thousands (!!) of uORFs was performed with the help of GWIPs-viz and Trips-viz resources. This could be a very useful resource for training different models for ORF prediction
Alla Fedorova retweeted
Make a good paper a Cell paper with our CELL TITLE Transformer:
Actual title: Trypanosoma brucei mitochondrial proteins TbTim17 and TbTRAP1 are biotinylated
CELL TITLE: Single-cell multi-omics and lineage tracing to dissect cell fate decision-making
My visit in EMBL-EBI, HAVANA-GENCODE gene annotation team is sadly finished. Great and very important science is being done there! Here I'm delivering a Ribo-seq interpreting workshop and it is the 2nd part where gene annotators are presenting genes as a part of gene contest
Finally, I published my first 1st author paper.
Good gift for Christmas :)
nature.com/articles/s41467-0…
