#cfRNA
"Immune cfRNA deconvolution revealed differences in platelet-derived cfRNA between cases and controls, as well as elevated levels of plasmacytoid dendritic, monocyte, and T cell–derived cfRNA"
#MEcfs #CFS #PwME
August 17, 2025 at 1:58 PM
RARE-seq, an ultrasensitive method, detects cfRNA, overcoming platelet contamination. Analytical validation shows it's ~2,000x more effective for cfRNA detection! PMID:40240612, Nature 2025, @Nature https://doi.org/10.1038/s41586-025-08834-1 #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪
An ultrasensitive method for detection of cell-free RNA | Nature
Sensitive methods for detection of cell-free RNA (cfRNA) could facilitate non-invasive gene expression profiling and monitoring of diseases1–6. Here we describe RARE-seq (random priming and affinity capture of cfRNA fragments for enrichment analysis by sequencing), a method optimized for cfRNA analysis. We demonstrate that platelet contamination can substantially confound cfRNA analyses and develop an approach to overcome it. In analytical validations, we find RARE-seq to be approximately 50-fold more sensitive for detecting tumour-derived cfRNA than whole-transcriptome RNA sequencing (RNA-seq), with a limit of detection of 0.05%. To explore clinical utility, we profiled 437 plasma samples from 369 individuals with cancer or non-malignant conditions and controls. Detection of non-small-cell lung cancer expression signatures in cfRNA increased with stage (6 out of 20 (30%) in stage I; 5 out of 8 (63%) in stage II; 10 out of 15 (67%) in stage III; 80 out of 96 (83% sensitivity) in stage
doi.org
April 21, 2025 at 10:10 AM
Fresh insights from the Flomics team! 🧬💻

Our new preprint is out:
“Systematic cross-study assessment of RNA-Seq workflows for plasma cfRNA profiling”
Is cfRNA the wild west of protocols? We investigated.

📄 Read it: www.biorxiv.org/cgi/content/...
Systematic cross-study assessment of RNA-Seq experimental workflows for plasma cell-free transcriptome profiling
Plasma cell-free RNA (cfRNA) is a promising source of non-invasive biomarkers, but its clinical translation is hindered by technical challenges and a lack of protocol standardization, which compromise...
www.biorxiv.org
July 15, 2025 at 8:39 AM
A couple of days left to apply! We have a PhD position available in the lab to improve our understanding of cfDNA and cfRNA shedding from cancer cells, and the potential impact on heterogeneity. #cfDNA #liquidbiopsy #cfRNA
If you're looking for a #PhD in #CancerResearch, we've got fantastic 4-year, fully-funded #PhDpositions available, with registration & graduation affiliated to the University of Manchester, UK

For details of the projects go to:
www.cruk.manchester.ac.uk/Education/Ph...

Closing date: 22nd Nov 2024
November 18, 2024 at 9:37 AM
July 15, 2025 at 8:56 AM
Check out this exciting preprint from @pradeepmadapura.bsky.social
#preeclampsia can be predicted even before the appearance of the symptoms using #Transposableelements levels in #cfRNA www.biorxiv.org/content/10.1...
November 16, 2024 at 5:28 PM
'Scientists Discover Crucial Biomarkers for Chronic Fatigue Syndrome'

'In a groundbreaking advancement..myalgic encephalomyelitis..researchers at Cornell...pioneered a novel approach leveraging circulating cell-free RNA (cfRNA) signatures detectable in blood plasma..'

scienmag.com/scientists-d...
Scientists Discover Crucial Biomarkers for Chronic Fatigue Syndrome
In a groundbreaking advancement poised to reshape the understanding and diagnosis of myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS), researchers at Cornell University have pioneered a
scienmag.com
August 11, 2025 at 8:43 PM
#aircargohistory 1920 - CFRNA ("The French-Romanian Company for Air Transport"; French: Compagnie Franco-Roumaine de Navigation Aérienne) was a French–Romanian airline, founded on 1 January 1920, the first operative transcontinental #airline in the history of #aviation.

en.wikipedia.org/wiki/CFRNA
March 23, 2025 at 9:47 PM
🤖 Language model spots cancer signatures in plasma cfRNA

Researchers have developed a Transformer based model that directly processes nucleotide sequences of human mapped cfRNA reads to identify cancer indicative signatures,...

#ComputationalBiology #DeepLearning #Genomics #AI #AIPulse
Read the full article →
www.synestesia.uk
July 10, 2026 at 3:31 AM
Detecting multiple myeloma early through a simple blood test? cfRNA research is making this possible. Learn more about the future of early detection.🧪

➡️ youtube.com/shorts/hI76M...

#Research #RNAsky #CancerResearch #MicroSky #CancerAwareness #cfRNA
The Blood Test That Could Spot Multiple Myeloma
YouTube video by Norgen Biotek Corp.
youtube.com
January 21, 2025 at 5:34 PM
De Vlaminck’s laboratory previously demonstrated the diagnostic power of cfRNA in identifying Kawasaki disease and multisystem inflammatory syndrome in children (MIS-C), signaling the versatility of this approach in inflammatory and immune-mediated conditions.

🏷️ @buonsenso.bsky.social ⬆️
August 11, 2025 at 10:41 PM
🚨 cfRNA is Here — and It’s a Game Changer! 🧬🩸
Max Diehn et al., Nature 2025
🔗 DOI: 10.1038/s41586-025-08834-1

👏 From one of our #ISLB awardees!

✅ RAREseq method for ultrasensitive cfRNA profiling 💡
✅ cfRNA detects mutations and specific expression patterns in early-stage NSCLC
April 19, 2025 at 8:25 AM
2) RNA molecules are normally inside cells but when they die, some of it leaks out. By focusing on this circulating cell-free RNA (cfRNA) in plasma, scientists get a glimpse of what is happening in different cell types (and extracellular vesicles) across the body.
August 12, 2025 at 2:41 PM
A Cell Reports Medicine study presenting a systematic evaluation of cell-free multiomics data, including methylated cfDNA immunoprecipitation sequencing (cfMeDIP-seq) and cfDNA whole-genome sequencing (cfWGS) as well as total and small cfRNA sequencing (cfRNA-seq)". www.genomeweb.com/sequencing/l...
Liquid Biopsy Comparison Highlights Cell-Free RNA, Multiomic Approaches for Detecting Gastrointestin...
Researchers used a range of cell-free DNA or cell-free RNA analysis methods to detect possible blood plasma markers for colorectal or stomach cancer.
www.genomeweb.com
November 25, 2023 at 7:02 PM
#aircargohistory 1925 - CIDNA ("The International Air Navigation Company"; French: Compagnie Internationale De Navigation Aérienne) is formed from CFRNA. It operated pax #airmail and #cargo services until 1933, when it merged with three other airlines to form #AirFrance.

en.wikipedia.org/wiki/CFRNA
March 23, 2025 at 9:41 PM
And now for a not-so-humble brag…
We were thrilled when the analysis revealed our own in-house Flomics libraries, using a rigorous double-DNase digestion protocol, ranked as the highest-quality dataset among all whole-cfRNA-Seq methods! 🎉💪
July 15, 2025 at 8:39 AM

6) The authors then used machine learning models to detect patterns in their data. They noticed that the accuracy was highly variable and dependent on the fraction of platelet-derived cfRNA (which was lower in ME/CFS).

It's not fully clear what this means...
August 12, 2025 at 2:41 PM
"we identified significant differences in cfRNA contributions from multiple immune cell types. Notably, we observed a decrease in platelet-derived cfRNA and an increase in pDCs, monocytes, and certain T cell subset-derived cfRNA"

#MECFS

www.pnas.org/doi/10.1073/...
Circulating cell-free RNA signatures for the characterization and diagnosis of myalgic encephalomyelitis/chronic fatigue syndrome | PNAS
People living with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) experience heterogeneous and debilitating symptoms that lack suffici...
www.pnas.org
August 12, 2025 at 12:13 AM
Circulating leptin (LEP) and pappalysin2 (PAPPA2) cfRNAs are the strongest cfRNA predictors of complicated pregnancies www.nature.com/articles/s41...
Raised Leptin and Pappalysin2 cell-free RNAs are the hallmarks of pregnancies complicated by preeclampsia with fetal growth restriction - Nature Communications
Early detection could improve prognosis for preeclampsia and fetal growth restriction, major causes of maternal/fetal morbidity and mortality. Here they show that Leptin and Pappalysin2 cell free RNAs...
www.nature.com
July 18, 2025 at 10:43 AM
Will Implantation assessment eventually become a liquid biopsy?

Exosomes, cfRNA, and miRNAs could detect abnormal receptivity or placentation before clinical manifestations?

Strong biology.
Still weak clinical validation. #eshrejc

link.springer.com/article/10.1...
Current knowledge on the role of extracellular vesicles in endometrial receptivity - European Journal of Medical Research
Endometrial receptivity has been widely understood as the capacity of the endometrium to receive implantable embryos. The establishment of endometrial receptivity involves multiple biological processe...
link.springer.com
May 29, 2026 at 8:30 PM
It goes without saying that this approach and framework can go beyond cfRNA and liquid biopsy and can directly be translated to other data modalities in clinical genomics.
April 1, 2025 at 10:03 PM
Joining forces with the legendary @babak-a.bsky.social, @fhormozd.bsky.social, and @mkarimzadeh.bsky.social to bring you Exai-1; a multi-modal cell-free RNA foundation model for blood surveillance and liquid biopsy applications. Kudos to the broader @exai.bio team!

www.biorxiv.org/content/10.1...
A multi-modal cell-free RNA language model for liquid biopsy applications
Cell-free RNA (cfRNA) profiling has emerged as a powerful tool for non-invasive disease detection, but its application is limited by data sparsity and complexity, especially in settings with constrain...
www.biorxiv.org
April 1, 2025 at 10:02 PM
A cfRNA foundation model must capture both of these factors: the contextual role of cfRNA sequence, a task that transformers excel at, while also learning the underlying latent distribution of cfRNA abundance data, a task that VAEs excel at.
April 1, 2025 at 10:03 PM
Cornell researchers studied 93 ME/CFS patients and 75 controls, finding a 21-gene blood cfRNA signature that diagnosed ME/CFS with 77% accuracy and revealed immune dysfunction with signs of chronic inflammation.

www.pnas.org/doi/10.1073/...
Circulating cell-free RNA signatures for the characterization and diagnosis of myalgic encephalomyelitis/chronic fatigue syndrome | PNAS
People living with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) experience heterogeneous and debilitating symptoms that lack suffici...
www.pnas.org
August 11, 2025 at 8:32 PM