Discover and read the best of Twitter Threads about #omics
Most recents (8)
1) Welcome to our new #accredited #tweetorial on the Pathophysiology of #DKD in #T2D: Traditional Teaching and New Insights. Our expert author is Hans-Joachim Anders, MD, @hjanders_hans from @LMU_Uniklinikum of @LMU_Muenchen 
2) This #accredited #tweetorial series on the foundations of #kidneydisease #DKD through the lens of #T2D is supported by an independent educational grant from the Boehringer Ingelheim/Lilly Alliance and is intended for healthcare providers.
3) This activity is accredited for #physicians #physicianassociates #nurses #NPs #pharmacists. Past programs still eligible for credit can be found at ckd-ce.com. Faculty disclosures & accreditation statement are at ckd-ce.com/disclosures/. FOLLOW US!
Online Now: Multi-omic analyses identify mucosa bacteria and fecal metabolites associated with weight loss after fecal #microbiota transplantation @The_InnovationJ #omics #bioinformatics #meded #medtwitter #GItwitter
cell.com/the-innovation…
cell.com/the-innovation…
1. Fecal microbiota transplantation (FMT) led to individualized response of phenotype, mucosal and fecal microbiome in obese subjects.
2. FMT led to an increased relative abundance of Bacteroides in the colonic microbiome while was less influential in shaping microbiota of the small intestine
1) Welcome to our new #accredited #tweetorial on the Pathophysiology of #DKD in #T2D: Traditional Teaching and New Insights. Our expert author is Hans-Joachim Anders, MD, @hjanders_hans from @LMU_Uniklinikum of @LMU_Muenchen
2) This #accredited #tweetorial series on the foundations of #kidneydisease #DKD through the lens of #T2D is supported by an independent educational grant from the Boehringer Ingelheim/Lilly Alliance and is intended for healthcare providers.
3) This activity is accredited for #physicians #physicianassociates #nurses #NPs #pharmacists 🇺🇸🇪🇺🇬🇧🇨🇦. Past programs still eligible for credit are at ckd-ce.com. Faculty disclosures are at ckd-ce.com/disclosures/. FOLLOW US for regular programs by expert faculty!
In #biotech #stock news, I've added $NSTG NanoString to the list of companies I follow, one of the players in the single cell and spatial omics fields
The field is still dominated by $TXG 10X Genomics, which also have recently acquired 3 different companies in the spatial omics area, which encapsulate 60-70% of the technologies used for all the papers published using such technologies.
You can read more about the history of the field and current players and trends in this document produced by @LambdaMoses : pachterlab.github.io/LP_2021/index.…
Check out our new paper by @smartinezarbas et al. about #CRISPR mediated interactions within a wastewater #microbiome in @NatureMicrobiol! Exciting collaboration between @uni_lu @TGen @IUBloomington @isbsci @KU_Leuven. Funding by @FnrLux
nature.com/articles/s4156…
A 🧵👇
1/9
nature.com/articles/s4156…
A 🧵👇
1/9
In parallel with recent work of @mhe345 @NatureComms nature.com/articles/s4146…, we explored the roles of #plasmids and #phages within a wastewater treatment plant microbial community, using longitudinal integrated #omics data 2/9
Time to catch up on some #Senescence papers, starting with beautiful work by @corina_amor_MD, Judith Freucht & @JosefLeibold. They used #CART #CellTherapy to clear #Senescent cells, and you'll never guess what happened next! nature.com/articles/s4158…
Just kidding, you guessed it: disease model mice got better. Props to the authors for A) inducing #Senescence in 3 different ways, B) using 2 models of #NASH/liver #Fibrosis, and C) validating their senescence observations in human samples of #Cancer and #Atherosclerosis.
The linchpin of the paper was identifying a specific membrane marker on #Senescent cells, uPAR. They used bulk #Transcriptomics to identify candidates, then narrowed down with #Proteomic data. Go #Omics!
They didn't explore whether uPAR is causative for the #Senescent phenotype.
They didn't explore whether uPAR is causative for the #Senescent phenotype.
PathME unsupervised #multiomics
1) genes space → pathways space
2) for each pathway: collapse pathways from multiple omics to one per patient
3) sparse NMF biclustering
✓compared against SNF and iCluster
✓TCGA x 4
✓hyperparameters
✓source code
✓5-fold CV
#SundayMultiOmics
1) genes space → pathways space
2) for each pathway: collapse pathways from multiple omics to one per patient
3) sparse NMF biclustering
✓compared against SNF and iCluster
✓TCGA x 4
✓hyperparameters
✓source code
✓5-fold CV
#SundayMultiOmics
Article: doi.org/10.1186/s12859…
GitHub: github.com/AminaLEM/PathME
Figure © by authors, reused under CC-BY 4.0:
creativecommons.org/licenses/by/4.0
#omics #NeuralNetworks
GitHub: github.com/AminaLEM/PathME
Figure © by authors, reused under CC-BY 4.0:
creativecommons.org/licenses/by/4.0
#omics #NeuralNetworks
Worth noting:
- authors use sNMF consensus from 500 runs (cophenetic correlation + permutation testing to choose # of clusters)
- the autoencoders are denoising
- worth praise is the effort into interpretability (of both features/omics & clinical associations) - see supplement!
- authors use sNMF consensus from 500 runs (cophenetic correlation + permutation testing to choose # of clusters)
- the autoencoders are denoising
- worth praise is the effort into interpretability (of both features/omics & clinical associations) - see supplement!
1/7 With all the Warren, Eastern Metis and Chumash #pretendian stories flitting about, there isn't much opportunity to speak about the core issues of #AmerindigenousDisempowerment I hope my colleague forgives me using her video for my own purposes.
2/7 1) Amerindigenous groups are divided, as they have been since 1492. But they are united by ancestry and genomic evolution. 2) Amerindigenous groups are divided by colonial mindsets / language (Spanish & English, Puritans & Catholics, Segrationalist vs Aggregationalist Racism)
3/7 3) Divided by Affinity to whiteness and belief that we've lost the "If you can't beat them, join them mentality " (flag worship, military service, religion) 4) Divided by intra-Amerindigenous grudges over actions that were products of Colonial war and alliances.
