Charbel Machaalani

Dear network I am looking for patient advocacy or support groups for patients diagnosed with Kidney cancer [particularly clear cell Renal cell carcinoma]. or patients open to talk to me about life with metastatic cancer and disease monitoring.
(Ideally located in Switzerland)
Thank you 🙏

B: integrate, then cluster and annotate and then do sample specific sub-clustering

would love to have your input or ideas

Question for Single-cell experts:
I have single nuclei data for different samples from different patients.
would you:
A: Cluster and annotate each sample separately then integrate all of them together (but would need to find the best resolution for all samples)
#MesSky #Science #AcademicSky #GeneSky

Happy to give my talk, “Considerations for precision oncology and artificial intelligence for #Indigenous #genomic #data #sovereignty and #health disparities” at the American Association for #Cancer Research #aacr25 in Chicago! #ai

At the end it is reflecting what we value as a society which is the output regardless of understanding
with big data and rapidly evolving world we do need AI assistance but maybe redirected towards gaining skills and knowledge rather than accepted final output

Very interesting thread
From another side the brain is a muscle, are we really loosing intelligence or not training this muscle enough
Also new times, new skills needed, should we not have new metrics to measure performance other than the traditional ones?
#AcademicSky #AI #SocialSky #ScienceSky

Both papers in #NatureCom reveal therapeutic potential of CT-179 in Medulloblastoma recurrence by targeting OLIG-2. Blocking this protein reduced tumour formation and increased survival in mice by preventing dormant stem cells from being activated and proliferating. #MedSky #OncSky #Medulloblastoma

Higher Education Is Exhausted Some don’t see a future in a sector battling for its very existence.

“Many say that while they still love their work — and particularly working with students — they don’t know how long they can maintain their current pace. ‘Most of us are working seven days a week just to keep up… That’s not sustainable at all.’”

Long-term outcomes of GD2-directed CAR-T cell therapy in patients with neuroblastoma - Nature Medicine In an extended follow-up of a phase 1 trial evaluating a first-generation GD2-directed CAR-T cell therapy in patients with neuroblastoma, one patient has had a sustained clinical response for over 18 ...

🌟NEW in #NatureMedicine: the longest reported cancer remission after #CARTcell therapy (19 years)! No additional therapy needed. Encouraging news for the ongoing development of #CARTcells in solid tumors
#PedSky #OncSky #MedSky #immunotherapy #neuroblastoma
www.nature.com/articles/s41...

Diana Kwon,Nature 638, 592-593 (2025) doi: https://doi.org/10.1038/d41586-025-00425-4

Interesting read from @natureportfolio.nature.com
📉 PhD enrolments are dropping due to high living costs, low stipends & job insecurity. Many are stuck in a cycle of cheap labor with little mentorship. Is academia failing its future researchers? 🤔
#AcademicSky #Research #Science #PhD #AcademicLife

Hi @erikmcintire.bsky.social can you please add me to the science feed. Thanks in advance!

orcid.org/0000-0001-91...
www.kispi.uzh.ch/forschungsze...

Influenza A virus rapidly adapts particle shape to environmental pressures - Nature Microbiology Quantitative flow virometry assay to measure the shape of viral particles under various conditions reveals that influenza virus infections dynamically tune shape distribution of progeny particles depending on viral efficiency.

A study in Nature Microbiology demonstrates that phenotypic flexibility allows influenza A virus to rapidly respond to environmental pressures in a way that provides dynamic adaptation potential in changing surroundings. 🧪

First FDA-approved drug targeting fusions in paediatric gliomas! 🎉
This is a big step, BRAF::KIAA1549 is the most common molecular alteration in PLGG.
While OS is high, these patients face low PFS, long-term treatments, and a need for deeper research.💪🔬
#PediatricGlioma #FDAApproval #MedSky

Hi @andreasmoor.bsky.social can I also be added to the spatial biology starter pack. thanks

Hi @giorgioseano.bsky.social I would love to be added to this starter pack as it is my current research field. Thank you

Fast-forward 100 years from today "Plastic Brain" becomes an official diagnosis.
#Medsky 🧪🧠

Malicious Measles Myths: Memory-Holing a Monster Measles is already having a great 2024. We ought to put a stop to that.

Measles cases are rising in the US with infections across 5 states - now 48 cases and climbing in Texas alone. With antivax rhetoric from many in government, the world should remember why measles is a "monster"
Great article by @enirenberg.bsky.social

shorturl.at/JMPji #MedSky #measles #vaccinate

@lkpino.bsky.social would you agree on the name tag or think switching would make more sense?

Nextflow has been a game changer for non-computational biologists analyzing their own data! Excited for this conference! 🚀 #Bioinformatics #Nextflow

Fig. 4. Overview of imaging mass spectrometry-based spatial proteomics techniques. (A, B) Schematic diagrams of two mass spectrometry imaging strategies: spatially resolved top-down proteomics and spatially resolved bottom-up proteomics. (C) Principle of mass spectrometry imaging, including (i) workflow of spatial mass spectrometry imaging techniques and (ii) representative imaging results. Fig. 4C is reprinted with permission from Groseclose et al. Copyright 2007, John Wiley & Sons. source: Beiyu Hu, Junjie Zhu, Fangqing Zhao,The evolving landscape of spatial proteomics technologies in the AI age,Fundamental Research,2024,,ISSN 2667-3258, https://doi.org/10.1016/j.fmre.2024.11.023.

While the Imaging mass spectrometry (IMS)-based is defined as Top-down proteomics analysing intact proteins, while bottom-up proteomics digests proteins into peptides before analysis.
But I do agree with you, also when we say pixel we all intuitively think imaging.

Fig. 3. Summary of LC-MS/MS-based spatial proteomics techniques. (A, B) Schematic diagrams of two spatial sampling strategies: pixel-by-pixel (A) and region of interest (ROI, B). (C) Typical sample preparation workflow for LC-MS/MS-based spatial proteomics. source: Beiyu Hu, Junjie Zhu, Fangqing Zhao,The evolving landscape of spatial proteomics technologies in the AI age,Fundamental Research,2024,,ISSN 2667-3258, https://doi.org/10.1016/j.fmre.2024.11.023.

This figure is from a paper [source in the alt text] where they combine LC-MS/MS with with micro-manipulation techniques, such as laser capture microdissection (LCM) and that can be done on ROI or pixel by pixel level

Intracerebroventricular B7-H3-targeting CAR T cells for diffuse intrinsic pontine glioma: a phase 1 trial - Nature Medicine In the final report of a phase 1 trial evaluating intracerebroventricular B7-H3-targeting CAR T cells in children and young adults with diffuse intrinsic pontine glioma, repeated intracranial infusions were feasible and well tolerated with a median overall survival of 19.8 months and 3 patients surviving over 40 months from diagnosis.

In patients with diffuse intrinsic pontine glioma, a rare, fast-growing and fatal pediatric brain tumor, local delivery of B7-H3 targeting CAR T cells was feasible and well tolerated with a median overall survival of 19.8 months, according to a trial reported in Nature Medicine. #MedSky 🧪

1️⃣ Resolution – How detailed do you need? Higher resolution = more precision, but can be complex.
2️⃣ Targeted proteins – Focused project or exploratory?
3️⃣ Resources – What tools/funding are available?

Your choices shape your research! 🔍 What other variables should we consider?
#Computational #Biology

An overview of the main spatial proteomics methods. Beiyu Hu, Junjie Zhu, Fangqing Zhao, The evolving landscape of spatial proteomics technologies in the AI age, Fundamental Research, 2024,,ISSN 2667-3258,https://doi.org/10.1016/j.fmre.2024.11.023.

🌍 Let’s dive into #spatial #proteomics! 🧪🔬

Spatial proteomics is revolutionising how we map #proteins in cells and tissues, giving us crucial insights into their roles in both health and disease. 🧬

When choosing the right technology, here are three key factors to consider:
#AcademicSky #Science

A friend asked for resources to learn R as biologist
2 years ago I bought courses, most were repetitive “Hello World”
I tried FigOneLab by Dean Lee #NoAd before recommending it
Liked that it’s direct application to actual #bioinformatic use
Any other recommendations for beginners? #academia #biology

#AIgenerated

Hi bsky! I’m a PhD student exploring treatment impact on tumor development using #spatial #proteomics. Excited to join the scientific community. A year ago I made the jump from wet to dry lab and looking to connect with fellow peers. #Bioinformatics #academia #CancerResearch #Biology