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Elisa Rosati Scalchi

@elisarosix.bsky.social
702 followers 212 following 36 posts

👩‍🔬 ImmunOmics scientist. 💻 Immune repertoire geek. 🩵Work on immunopeptidomics. 💙 IUIS TR-IG NRC committee co-chair. 🐈‍⬛🍼Mother of 3 (2 cats + 1 human) 🍕 Foodie.

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Elisa Rosati Scalchi @elisarosix.bsky.social · 06/08/2026
🔬 What really makes a scientific job application stand out in the age of AI? Join this expert panel on 20 August, 15:00–16:00 BST, for an insider view of how selection decisions are made. from Oxford professors and industry perspectives. Register: bit.ly/3SayQdU #ScientificCareers
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Eric Topol @erictopol.bsky.social · 05/08/2026
Severe Covid leads to persistent viral reactivation, with >10 different viruses noted in the first 40 days after hospital admission. Long Covid was specifically associated with reactivation of latent Anelloviridae virus @nature.com www.nature.com/articles/s41...
nature.com
Virus reactivation in acute and long COVID-19 - Nature
Chronic reactivation of distinct herpesviruses and anelloviruses occur during acute and long COVID-19, and track with disease severity, inflammation and outcomes, revealing immune signatures with prog...
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Elisa Rosati Scalchi @elisarosix.bsky.social · 15/01/2026
As many said, I also think @wikipedia.org is one of the rare good places remained on the internet. Wikipedia is 25! If you use it all the time and want to protect a future where knowledge is human-made, join me and donate now: donate.wikipedia25.org #Wikipedia25
donate.wikipedia25.org
Make your donation now - Wikimedia Foundation
Donate to the Wikimedia Foundation, the nonprofit that hosts Wikipedia and other crucial free knowledge projects. Each year, the generosity of the 2% of readers who donate allows us to expand the reac...
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Brittany Trang @brittanytrang.com · 08/11/2025
A Sharon Begley byline, almost 5 years after her death. Upon hearing the news James Watson had died, a STAT reporter said in our Slack, "I wish I could read what Sharon would have written." Incredible news: Sharon in fact did pre-write a Watson obit. And it is masterful and excoriating. 🧪🧬🧫
statnews.com
James Watson, dead at 97, was a scientific legend and a pariah among his peers
James Watson, the co-discoverer of the structure of DNA who died Thursday at 97, was a scientific legend and a pariah among his peers.
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Richard Sever @richardsever.bsky.social · 25/10/2025
That merely being “under review” by a Nature family journal is offered as a quality proxy for a paper is a tragic illustration of the extent to which academia is addicted to brands and outsources evaluation
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Waggoner Lab @labwaggoner.bsky.social · 24/10/2025
@biorxivpreprint.bsky.social Regulatory T-cells in multiple sclerosis produce IL-10 in the central nervous system but are activated by Epstein-Barr Virus www.biorxiv.org/content/10.1...
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Nature Biotechnology @natbiotech.nature.com · 21/10/2025
Integrated epigenetic and genetic programming of primary human T cells - @gladstoneinst.bsky.social @ucsanfrancisco.bsky.social @j-eyquem.bsky.social @marsonlab.bsky.social go.nature.com/3WOJJAJ
go.nature.com
Integrated epigenetic and genetic programming of primary human T cells - Nature Biotechnology
Multiplexed editing in primary human T cells generates enhanced immune cell therapies.
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Marc Veldhoen @marcveld.bsky.social · 18/10/2025
Very good 😂. This describes a lot of what is going on accurately. Credit: @integralanswers.bsky.social
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Marc Veldhoen @marcveld.bsky.social · 11/10/2025
Germinal center–mediated broadening of B cell responses to SARS-CoV-2 booster immunization Original antigenic sin? No, memory B cells are predominantly recruited to the germinal center, where they undergo further selection and affinity maturation. www.science.org/doi/... 1/4
science.org
Germinal center–mediated broadening of B cell responses to SARS-CoV-2 booster immunization
SARS-CoV-2 variant booster vaccination broadens human B cell responses through the germinal center reaction.
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Elisa Rosati Scalchi @elisarosix.bsky.social · 08/10/2025
Statistics on 100 million people - I repeat - 100 million people‼️‼️⚠️ Says #shingles vaccine reduces risk of #dementia of 20-30%. This is mind blowing 🤯 www.nature.com/articles/s41...
nature.com
Varicella-zoster virus reactivation and the risk of dementia - Nature Medicine
Large-scale longitudinal health records reveal consistent association of varicella-zoster virus reactivation with dementia.
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Corey Watson @cdubsig.bsky.social · 29/08/2025
Hi. If you're interested in learning more about the state of play in IG and T cell receptor gene curation, check out these articles: www.sciencedirect.com/science/arti... @jamieheather.bsky.social @guryaari.bsky.social @williamlees.bsky.social @ayeletperes.bsky.social @elisarosix.bsky.social
sciencedirect.com
The gremlin in the works: why T cell receptor researchers need to pay more attention to germline reference sequences
The rise of T cell receptor (TCR) sequencing technologies is driving both new understandings of the immune system and the development of novel clinica…
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Elisa Rosati Scalchi @elisarosix.bsky.social · 28/06/2025
1/6 🧬 NEW COMMENTARY 🧬 Let’s talk about the challenges in immunoglobulin (IG) & T cell receptor (TR) gene nomenclature in the era of modern genomics. A 🧵 on why it’s time to rethink how we name these genes—and what it means for immunogenetics. #IGTR #Genomics #Immunology
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Seth Thomas Scanlon @immunoeditor.bsky.social · 09/06/2025
This fantastic work by @emilyaunins.bsky.social, Anthony Phan, @drewweissmanlab.bsky.social, @kingofpathogens.bsky.social, & colleagues is featured on this month's cover of #Science #Immunology!
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Elisa Rosati Scalchi @elisarosix.bsky.social · 28/05/2025
And the second day of #ATCR25 also came to an end. Felt the meeting was a real fresh air of ideas. Super glad I joined. The best part is always to meet with old friends, and the #goodscience of course 😉 I love the location in Antwerp too 😍
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Elisa Rosati Scalchi @elisarosix.bsky.social · 27/05/2025
First day of #ATCR25 in Antwerp: done ☑️ 🤩 Picture of Antwerp city station #immunology #TCRrepertoire #Tcells #research
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Simon Fisher @profsimonfisher.bsky.social · 02/05/2025
Remember when you first learned about genetics at school? All those fascinating examples of human traits that are each apparently determined by just a single gene? Time to check in on some of your favourites to see how they’re doing. 🧬🧵🧪 1/n
Four images to illustrate some prominent single-gene myths. Top left shows a photograph of a person deftly rolling their tongue into a U-shape. Top right shows a photograph of a person’s ear, highlighting the shape and features of the earlobe and cartilage. Bottom left shows a close-up photograph of a person’s eye, with a vivid blue colouration. Bottom right shows a photograph of a person poised to write with their left hand on the blank white page of a spiral-bound notebook.
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Marc Veldhoen @marcveld.bsky.social · 03/05/2025
'Unparalleled' snake antivenom made from man bitten 200 times The blood of a US man who deliberately injected himself with snake venom for nearly two decades has led to an "unparalleled" antivenom, say scientists. www.bbc.com/news/art... 1/8
bbc.com
'Unparalleled' snake antivenom made from man bitten 200 times
Scientists hope to make a universal antivenom from the extraordinary blood of a man exposed to snake venom for decades.
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Eric Topol @erictopol.bsky.social · 01/05/2025
New @science.org An innovative way to deliver drugs to the gut at low doses to suppress inflammation www.science.org/doi/10.1126/...
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Jamie Heather @jamieheather.bsky.social · 09/04/2025
Cool pre-print in my feeds this morning, using a neat trick weighting TCRs by similarity prior to DGE better resolve differential usage. Seems to be a clever trick to make TCRseq behave a little more like regular RNAseq data and better use regular stats/tools: www.biorxiv.org/content/10.1...
biorxiv.org
Differential T cell receptor gene expression analysis using the Wilcoxon test with similarity-based weighting
To better understand immune responses, comparing the abundance of T cell receptors (TCRs) between conditions can provide insights into which T cells have proliferated or were involved in immune activa...
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Elisa Rosati Scalchi @elisarosix.bsky.social · 03/04/2025
www.nature.com/articles/s41...
nature.com
A natural experiment on the effect of herpes zoster vaccination on dementia - Nature
Using a natural experiment that avoids common bias concerns, this study finds that the live-attenuated shingles vaccine reduced the probability of a new dementia diagnosis within a follow-up period of...
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Jeff Mold @jeffmold.bsky.social · 22/03/2025
This looks super interesting www.biorxiv.org/content/10.1...
biorxiv.org
Ultra long-lived plasma cells in the human small intestine produce microbiota-reactive IgA antibodies
A large fraction of the intestinal microbiota is highly coated with secretory IgA, and bacteria-specific IgA is believed to shape the composition of the microbiota. A hallmark of the adaptive immune s...
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Waggoner Lab @labwaggoner.bsky.social · 17/03/2025
Direct presentation of endogenous antigen on MHC II is crucial to mRNA-LNP vaccine-induced immune responses doi.org/10.1101/2025...
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Waggoner Lab @labwaggoner.bsky.social · 18/03/2025
42-Parameter (40-Color) Spectral Flow Cytometry Panel for Comprehensive Immunophenotyping of Human Peripheral Blood Leukocytes doi.org/10.1002/cyto...
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Joe Sabatino @jsabatino37.bsky.social · 18/03/2025
T-bet+ CXCR3+ B cells drive hyperreactive B-T cell interactions in multiple sclerosis www.sciencedirect.com/science/arti...
sciencedirect.com
T-bet+ CXCR3+ B cells drive hyperreactive B-T cell interactions in multiple sclerosis
Multiple sclerosis (MS) is an autoimmune disease of the central nervous system (CNS). Self-peptide-dependent autoproliferation (AP) of B and T cells i…
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Armita Nourmohammad @thearmita.bsky.social · 04/03/2025
check out our new manuscript (led by Gian Marco Visani): structure-based machine learning model for TCR-pMHC complexes, predicting T-cell affinity to peptide-MHC complexes, quantifying T-cell receptor specificity, and designing de-novo immunogenic peptides: arxiv.org/abs/2503.00648
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Jonas N. Søndergaard @jonasns.bsky.social · 20/02/2025
Excited to see our new single cell immunology tool out now in @naturecomms.bsky.social. We made "Single cell suppression profiling of human regulatory T cells" to generate a human model to screen for cell-type specific effects on all immune cells simultaneously. www.nature.com/articles/s41...
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Science Magazine @science.org · 18/02/2025
More and more scientists are joining the ranks of fired federal workers—and fighting back through protests, appeals, and legal challenges.
scim.ag
Mass firings decimate U.S. science agencies
White House dismissals and rationale challenged by dismissed scientists and lawsuits
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Waggoner Lab @labwaggoner.bsky.social · 18/02/2025
Lung CD4+ resident memory T cells use airway secretory cells to stimulate and regulate onset of allergic airway neutrophilic disease @cp-cellreports.bsky.social www.cell.com/cell-reports... @anukulshenoy.bsky.social
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Justin Eyquem @j-eyquem.bsky.social · 05/02/2025
Excited to share our latest work, now out in @NatureBiotech ! We introduce SEED-Selection, a powerful method that enables high-efficiency enrichment of T cells edited at multiple loci in a single step 🧵👇 www.nature.com/articles/s41...
nature.com
SEED-Selection enables high-efficiency enrichment of primary T cells edited at multiple loci - Nature Biotechnology
Primary T cells with multiple genetic modifications are rapidly isolated by negative selection.
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Jeff Mold @jeffmold.bsky.social · 14/02/2025
To read: www.science.org/doi/10.1126/...
science.org
KLF2 maintains lineage fidelity and suppresses CD8 T cell exhaustion during acute LCMV infection
Naïve CD8 T cells have the potential to differentiate into a spectrum of functional states during an immune response. How these developmental decisions are made and what mechanisms exist to suppress d...
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Health Nerd @gidmk.bsky.social · 12/02/2025
The problem with vaccines. When a public health intervention becomes a victim of its own success. gidmk.substack.com/p/the-proble...
gidmk.substack.com
The Problem With Vaccines
When a public health intervention is literally too good.
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Nature Reviews Gastroenterology & Hepatology @natrevgastrohep.nature.com · 31/01/2025
New online! Understanding the therapeutic toolkit for inflammatory bowel disease
nature.com
Understanding the therapeutic toolkit for inflammatory bowel disease
Nature Reviews Gastroenterology & Hepatology, Published online: 31 January 2025; doi:10.1038/s41575-024-01035-7The management of inflammatory bowel disease (IBD) continues to evolve. This Review is a practical guide on the therapeutic toolkit for IBD,…
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Waggoner Lab @labwaggoner.bsky.social · 29/01/2025
Dynamic trajectories of human peripheral immune cells from birth to old age @natimmunol.bsky.social www.nature.com/articles/s41... www.nature.com/articles/s41...
nature.com
Integrating single-cell RNA and T cell/B cell receptor sequencing with mass cytometry reveals dynamic trajectories of human peripheral immune cells from birth to old age - Nature Immunology
In this Resource, authors profile peripheral immune cells from a total of 220 healthy volunteers from birth to over 90 years. This revealed that T cells were most affected by aging with divergent agin...
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Elisa Rosati Scalchi @elisarosix.bsky.social · 18/01/2025
Yet another piece on immune receptor specificity predictions. More and more papers on tje topic, it feels like little small pieces of a very big puzzle 🧩, will we ever complete it? #immunerepetoire #machinelearning www.cell.com/cell-systems...
cell.com
Predicting adaptive immune receptor specificities by machine learning is a data generation problem
Predicting immune receptor specificity is crucial to progress in developing immunotherapies. Despite the advent of AI tools for protein structure prediction, challenges remain in accurately modeling i...
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David Usharauli @davidusharauli.bsky.social · 13/01/2025
"'evidence suggests that they are specifically tasked with controlling self-reactive T cells that have been activated by infection. How Ly49+/KIR+ CD8 regulatory cells can identify which cells are self-reactive? this interpretation seems unrealistic. #immunology
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samuel mehr @mehr.nz · 04/01/2025
not really related I know but just had a look at the article metrics and here's some decent evidence science twitter has moved fully to bsky
altmetric for this article, with only 64 tweets and 426 skeets
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Elisa Rosati Scalchi @elisarosix.bsky.social · 29/12/2024
Another advancement in TCR-based therapeutics www.cell.com/immunity/ful...
cell.com
T-Switch: A specificity-based engineering platform for developing safe and effective T cell therapeutics
Abdelfattah et al. developed an engineering platform (T-Switch) for the creation, modification, and high-throughput profiling of T cell receptors (TCRs) to desired targets, particularly self-antigens. T-Switch identified potent and specific candidate TCRs against a clinically relevant cancer self-target highly expressed in neuroblastoma and has potential for broader application in immunotherapy.
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Elisa Rosati Scalchi @elisarosix.bsky.social · 27/12/2024
Is it a cold, flu or Covid-19? We often wonder how to tell the difference right? I found this article from my company #GSK quite insightful and the graphics in particular. #covid19 #flu #science www.gsk.com/en-gb/behind...
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Elisa Rosati Scalchi @elisarosix.bsky.social · 24/12/2024
1/10 Small pre-Christmas #bluetorial on the workshop held by the T-cell Receptor (TR) and Immunoglobulin (IG) Nomenclature Sub-Committee of @iuis-online.bsky.social on policies and procedures for TR/IG gene annotation and nomenclature #immunerepertoire #immunogenetics
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Marc Veldhoen @marcveld.bsky.social · 24/12/2024
Coupling antigens from multiple subtypes of influenza can broaden antibody and T cell responses A monozygotic twins and vaccinated newborns study with an old twist: antigen conjugation to full T cells in providing broad B cell help! www.science.org/doi/... 1/10
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Waggoner Lab @labwaggoner.bsky.social · 16/12/2024
Tracking tetramer-binding cells during re-stimulation showed that CXCR4-CD137+ cells provide a more accurate measure of the Ag-specific population than standard AIM readouts @jenjuno.viralvaxlab.com doi.org/10.1101/2024...
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Elisa Rosati Scalchi @elisarosix.bsky.social · 16/12/2024
www.biorxiv.org/content/10.1... Be sure of what you capture with your AIM assay
biorxiv.org
Deconvoluting TCR-dependent & -independent activation is vital for reliable Ag-specific CD4+ T cell characterization by AIM assay
AIM assays are thought to detect antigen (Ag)-specific T cell responses in an HLA- and cytokine-independent manner. Recent studies using AIM assays identified prominent Th17-like (CCR6+) CD4+ T cells ...
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Petter Brodin @petterbrodin.bsky.social · 14/12/2024
Another excellent piece by @apoorvanyt.bsky.social in NYT on immunity and vaccine safety in young children
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Puneet Rawat, PhD @puneet021192.bsky.social · 14/12/2024
Happy to share our new collaborative work! 🚨 We analyzed 2250 TCR repertoires to uncover how HLA risk alleles shape immune autoreactivity in T1D. T1D-specific HLA-motifs were also validated in pancreatic lymph nodes (pLN) & spleen. 🧬🧵 #T1D #Immunology #TCR 1/9
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Pieter Meysman @pmeysman.bsky.social · 02/12/2024
Our massive effort to recontextualize #single #T-cell data is now out in Science Advances! We developed a new system, STEGO, to do a TCR-first analysis, and reanalyzed 12 studies and more than 500 000 individual T-cells. Supported by @cziscience.bsky.social ! doi.org/10.1126/scia...
doi.org
T cell receptor–centric perspective to multimodal single-cell data analysis
T cell receptor–centric perspective improves single-cell analysis.
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Sean Gibbons 🦠💩 @gibbological.bsky.social · 01/12/2024
Gut microbiota strain richness is species specific and affects engraftment www.nature.com/articles/s41...
nature.com
Gut microbiota strain richness is species specific and affects engraftment - Nature
Strain richness of gut microbiota ecosystems is a key characteristic underpinning engraftment in faecal microbiota transplantation, and could improve the design of defined live biotherapeuti...
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Journal of Open Source Software @joss-openjournals.bsky.social · 01/12/2024
Just published in JOSS: 'rdata: A Python library for R datasets' doi.org/10.21105/joss.07540
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Elisa Rosati Scalchi @elisarosix.bsky.social · 30/11/2024
I can relate to this 😅 Maternity leave is wonderful… and terrible… for people like me who love their job and are passionate about it, being stuck with diapers and not being able to use the brain as we would like is a nightmare for our mental health 😅 Tell me about science stuff please 😂
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Paul Thomas @pgtimmune.bsky.social · 26/11/2024
We keep improving TIRTL-seq, see the updated preprint (www.biorxiv.org/content/10.1...)! New additions include: a manual 96-well protocol, code and raw data now available, and successful in vitro validation of EBV and SARS-CoV-2 TCRs.
biorxiv.org
TIRTL-seq: Deep, quantitative, and affordable paired TCR repertoire sequencing
α/β T cells are key players in adaptive immunity. The specificity of T cells is determined by the sequences of the hypervariable T cell receptor (TCR) α and β chains. Although bulk TCR sequencing offe...
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