Gabriel Margarido

Profª Drª Maria Lúcia Carneiro Vieira, deste Depto. de Genética, eleita Membro Titular na área de Ciências Agrárias da Academia de Ciências do Estado de São Paulo (ACIESP - @aciespsp). #ESALQGenetics genetica.esalq.usp.br/mlcv_aciesp

Parabéns pela grande conquista, @Fernando_Correr! Nada me alegra mais do que ver os orientados chegarem mais longe que eu!

Our new book chapter, for any one interested in applying transcriptomics in plants: pubmed.ncbi.nlm.nih.gov/35113394/ with @gramarga, Hector Fabio Espitia-Navarro and John Jaime Riascos

Life is to short to use dated cli tools that suck Try these instead 🧵

@RicardoAAzeved2 @aafgarci Obrigado, Ricardo! Seu apoio constante significa muito para mim. Abraço!

Muuuuito Feliz de ver o mérito de colegas ser reconhecido! É um fim de ano bacana com essas notícias e que me faz acreditar que ainda existe justiça e reconhecimento de mérito de quem realmente merece, trabalha e faz a diferença. Abraço @aafgarci e @gramarga e outros colegas.

Now published on @TheorApplGenet!My research together with @gramarga @anetepsouza Very happy about this :D link.springer.com/article/10.100…

Today we publish a paper in @ScienceMagazine that expands nanopore readings to the proteome: a nanopore-based scanner to read off PROTEINS at the single-molecule level! 🤩 Awesome experiments by postdoc Henry Brinkerhoff of our #CDlab, with MD simulations of @aksimentievLab 1/x

This is a great overview of machine learning written for a biological audience. It covers not only different algorithms but also data leakage, evaluating articles that use machine learning, etc. nature.com/articles/s4158…

@nilshomer I work with plant genomics and have often used Picard. Imposter syndrome can definitely hit us all, but you're one (of many) that I look up to. Thanks for your contributions!

Sometimes I wonder if people even use Picard tools in #Bioinformatics Time to get a bit personal about how most of my tools “never made it”, imposter syndrome, and it’s ok to fail. A thread 1/n

I'm very glad to see our manuscript published. Congrats @rjgpimenta @BassoLetycia @Fernando_Correr @HosakaGuilherme @marishani17 @Beniciocsilva @DSforca @santos_lucasb @shin_nagai @gramarga @anetepsouza and all collaborators!!

Is finally out in the world! New preprint: Genomic prediction with allele dosage information in highly polyploid species. My PhD paper together with @gramarga and @anetepsouza biorxiv.org/content/10.110…

Bioinformatic pipelines

@anthonygitter Big congrats, Tony!

My promotion to associate professor with tenure has been approved! There are still a few more steps to make it official, but I'm too excited to wait to share the news. 1/

Happy to share our new publication in BMC Genomics (@BMC_series) on differential expression in leaves of Saccharum genotypes contrasting in biomass production. Thanks to @gramarga, @GuilhermeHosaka and all the other authors for their great contributions! rdcu.be/b7TTZ

Wow. Did not know this.

A new (3rd) release of the "Population and Quantitative Genetics" book. As usual, the book is completely open access as are all of the underlying source code, figures, illustrations. github.com/cooplab/popgen…

What do Eulerian and Hamiltonian cycles have to do with genome assembly? A blog post with Mihai Pop: medvedevgroup.com/2020/08/21/wha…

The more papers I read for a review article I'm writing about ML pitfalls in genomics, the more my faith is shaken in the results from papers that apply machine learning to methylation arrays. A salty thread. 1/

I was wrong. Thanks to all those who offered constructive criticism forbes.com/sites/stevensa…

SRA plans to drop base quality. This would make resequencing data largely useless for var calling. There are better ways to save space: quality binning and CRAM. If you use reseq data from SRA, please voice yourself in this RFI (deadline in 2 weeks): datascience.nih.gov/sra-rfi-submis…