rah

@KrishnaswamyLab great offer! Thanks for the opportunity. May I ask if there will be a similar Workshop at a different date? Cheers

Here is the corrected link! Sorry for the problem before. docs.google.com/forms/d/e/1FAI…

Workshop: Cancer Cell State Trajectories & Heterogeneity Across Space and Time Cancer cells don’t stay the same—they evolve across tissues & time, adapting to therapy and the microenvironment. But how do we uncover these hidden journeys from noisy, sparse single-cell data? Join us to learn machine learning tools for single cell ata from @KrishnaswamyLab PHATE, MIOFlow and RiTINI and more—combined with biological insights from @c_chaffer, Prof Peter Croucher, Dr John Lock and Prof Kris Killian on cancer cell plasticity, dormancy and metastasis. 🔬 Define cell state transitions in cancer progression 🧬 Decode complex single-cell data across space and time 💡 Discover new ways to target cancer vulnerabilities 📍  August 19-21, 11am-2pm AEST | 🖥️ Zoom Register here: #CancerBiology" target="_blank" rel="nofollow noopener">docs.google.com/forms/d/e/1FAI… hashtag#SingleCell hashtag#MachineLearning hashtag#CancerResearch hashtag#Bioinformatics hashtag#TrajectoryAnalysis hashtag#CancerPlasticity

@ItaiYanai even nowadays in many places/labs technical/research assistants often get only into the paper's acknowledgement . Seems to very much depend on the PI's "philosophy".

I'd love to know the backstory on why Elizabeth Roberts is not a full author here.

#proteomics #teammassspec #massspec #singlecell #bioinformatics

my Github Copilot license expired ... are there good /better alternatives for data analysis / science (python, R?) #datascience #machinelearning #python #biostatistic #bioinformatics #rstats #visualstudiocode #github

how come that these days particularly in Omics a correlation of 0.4-0.5 is called "good correlation"? Or sth like "strong agreement" #biostatistics #rstats #bioinformatics #datascience

@Soledad_Galli so what is the 'solution'?

I found 12 Python libraries for #machineLearning Interpretability while crafting my course: ▶️ Scikit-learn ▶️ treeinterpreter ▶️ ELI5 ▶️ Dalex ▶️ ALIBI explain ▶️ interpretML ▶️ OmniXAI ▶️ scikit-explain ▶️ pdpbox ▶️ pyAle ▶️ LIME ▶️ Shap But none met my expectations.🙄

@tangming2005 thanks for the post. I am stressing this point a lot from an experimental design point of view. Could you give some examples, please?

You need positive and negative controls for your data analysis

@SCIEXnews Any single-cell proteomics data available on this? @SCIEXnews #proteomics #singlecell #teammassspec

Which feature of the new ZenoTOF 7600+ system are you most pumped 💪 about??

The single greatest misunderstanding about science by the public is that scientists solve problems; in reality, scientists are primarily concerned with creating them.

another great lecture by @Al_Grigor @DataTalksClub explaining precision & recall (and more) super clearly. Highly recommended! youtube.com/watch?v=gRLP_m… #mlzoomcamp #DataScience #MachineLearning

@byu_sam @AJ_Brenes have a look at our sepsis data (>2000 plasma samples), hope not too shaloow if you're used to CPTAC ID numbers science.org/doi/full/10.11…

@AJ_Brenes A hundred sounds like a good start to give us an idea of biological variation for a single sample type. GTEx proteomics only does in the tens of samples, like 30 if I remember right.

#TeamMassSpec - what are people's favorite population scale proteomcis datasets? I'm a big fan of CPTAC, but what others do people use?

MaxQuant - The supplement of nature.com/articles/s4159… contains a file with the modifications ("MaxQuant modification table for TMT 32 plex"). If not already incorporated, based on this table you should be able to put the mods into SpectroMine. #proteomics #massspec

Great introductory talk on #singlecell sample prep and considerations by @ParseBio. Enjoyed watching it! #bioinformatics #multiomics #DataScience

Useful guide to get started with rmarkdown in VSC on @towardsdev @medium towardsdev.com/setting-up-r-f… #rstats #datascience #machinelearning #bioinformatics #python

Started today, very excited to take part! #DataScience #MachineLearning #Python #bioinformatics

Learn ML engineering in 4 months in a free online course by @Al_Grigor from @DataTalksClub - Linear and logistic regression - Tree-based models - Neural networks - Deployment with AWS, Serverless, Kubernetes Register here: ctt.ec/YytdK+

@lpachter Interesting (actually worrying), that even prominent names in the (computational) single-cell field produce such output. Where does this actually have its roots? Seems to self-propagate #bioinformatics #SingleCell

In this UMAP, there are arrows linking nothing to nothing (see panel d). Gornisht mit gornisht, as they say. Also drawing curves on top of a UMAP built from x-ray images by repurposing RNA velocity software that already didn't make sense is next level!

Not surprised to see the points in this UMAP trying to escape out of the plot they've been forced into. Source: nature.com/articles/s4159…

@UCDProteomics yes, absolutely agreed. Unfortunately, to me it seems that replication is not sth most people aim for when publishing (not just in methods papers). I constantly wonder how this is reflected in any biological conclusions made #proteomics #TeamMassSpec #Bioinformatics

I wish journals would require methods papers be reproducible by at least 3 labs before it can be published . Think of all the time and resources this would save !

@PastelBio @ProteomicsNews @BrukerMassSpec like this one nature.com/articles/s4146…

@PastelBio cool stuff probably following great work @ProteomicsNews spearheaded already a few years ago. I wonder if @BrukerMassSpec would be willing to share the raw files? #proteomics #singlecell #teammassspec

News in Proteomics Research blog post | You can do TMT on the TIMSTOFs!?!? proteomicsnews.blogspot.com/2024/09/you-ca… --- #proteomics #prot-other