Lmst

Pipeline release! nf-core/airrflow v5.0.0 - Tarantallegra!
B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
Please see the changelog: https://github.com/nf-core/airrflow/releases/tag/5.0.0

#airr #bcell #immcantation #immunorepertoire #repseq #nfcore #openscience #nextflow #bioinformatics

Epigenetic regulators like EZH2 are mutated in #Bcell #lymphoma, but what is their effect? This study reveals a role for mutant EZH2 in lymphomagenesis, using a new method for measuring #epigenetic heterogeneity & intra- #chromatin connectivity in #cancer @PLOSBiology https://plos.io/4mZcS8n

EZH2-mutants exhibit two distinct epigenetic populations. Top: Joint UMAP of OCI-Ly7 WT cells and the isogenic EZH2 Y646N cells (Left) or dMUT cells (Right). Colors indicate the sample index. Bottom: Only mutant-EZH2 cells are plotted, to highlight the subpopulation of mutant cells that cluster with WT cells, referred to as ‘WT-like’. The subpopulation of cells that cluster separately from WT is referred to as EZH2 Y646N ‘extreme’ or dMUT ‘extreme’, respectively.

Pipeline release! nf-core/airrflow v4.3.1 - v4.3.1 Revelio bugfix!

Please see the changelog: https://github.com/nf-core/airrflow/releases/tag/4.3.1

#airr #bcell #immcantation #immunorepertoire #repseq #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/airrflow v4.3.0 - v4.3.0 - Revelio!

Please see the changelog: https://github.com/nf-core/airrflow/releases/tag/4.3.0

#airr #bcell #immcantation #immunorepertoire #repseq #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/airrflow v4.2.0 - v4.2.0 Evanesco!

Please see the changelog: https://github.com/nf-core/airrflow/releases/tag/4.2.0

#airr #bcell #immcantation #immunorepertoire #repseq #nfcore #openscience #nextflow #bioinformatics

https://www.easychair.info/p/the-intrinsic-severity-of-sars-cov?publication_id=1114355&utm_medium=email&utm_campaign=email-share&triggerShare=true&r=13iwi

This piece by @fitterhappierAJ makes the cut in my Covid 2024 edit
It ONLY came to my attention the other day (b/c I don’t much venture out of my eco-system of truth) exactly HOW bad the advice in traditionally searched “health” media is & it appears to have started in earnest approx 1 year ago

This isn’t ground zero, but in this article common sense of Dr. Ziyad Al-Aly is counterpointed w/: But Dr Celine Gounder, an infectious disease epidemiologist and editor-at-large at Kaiser Health News, is among those who said that #immunity from a first infection means that a subsequent infection poses a lower risk of such outcomes.

“There is nothing about a #reinfection that is more dangerous than an original infection, and if anything, a reinfection is going to be lower risk because you have some immunity baseline at the time of reinfection,” said Gounder.

https://www.theguardian.com/world/2023/jan/23/repeat-covid-infections-health-risks

What a difference a year of #misinformation #disinformation makes b/c this EXACT narrative permeates the worldwide collective consciousness. It is AMAZING this is taken as fact at this point as it is a COMPLETE LIE!

If anyone has any specific #tcell #bcell #CovidPapers or articles that reference them that would be useful in countering this narrative, please post here🙏🏼🖤🖤🖤

Perhaps we can be in a different place in 1 year…🌈🌈

People CAN be persuaded w/logic/facts & if they are experiencing symptoms & seeing it all around them, all the more

The transcription factor Pax5 regulates #Bcell development & commitment, and scientists in the lab of Meinrad Busslinger have found out how. Out now in @JExpMed.
Our interview with first author Sarah Grünbacher 👉🏼 https://www.imp.ac.at/news/article/immunologists-reveal-how-the-pax5-protein-regulates-b-cell-development-and-commitment
The paper 👉🏼 https://rupress.org/jem/article/220/12/e20230260/276276/Essential-role-of-the-Pax5-C-terminal-domain-in

Local enhancers of the #PAIR4 regulatory module promote distal V-H gene #recombination at the #Igh locus and contribute to #Bcell receptor repertoire diversification

Louisa Hil et al Busslinger lab @IMPvienna

https://www.embopress.org/doi/full/10.15252/embj.2022112741

EMBO Journal Issue 4/23:
- Commentary on #creativity needs in research
- #Degron recognition in orphan complex subunits by CLR4-DCAF12 E3 #ubiquitin #ligase
- #Plasmamembrane topography of #IgM #Bcell receptors
- #YAP roles and regulation in #tumorigenesis
- #Brassinosteroid interplay with #katanin #microtubule severing

Cover by Satarupa Bhaduri, Analine Aguayo, Sonya Neal et al
https://www.embopress.org/toc/14602075/2023/42/4

EMBO Journal 4/23 cover features a cartoon depiction of yeast Derlin Dfm1 as a parcel service van, delivering an "Orm2"-labelled package to a household postal box that form part of a Golgi vesicle stack.

An Immunological Review of SARS-CoV-2 Infection and Vaccine Serology: Innate and Adaptive Responses to mRNA, Adenovirus, Inactivated and Protein Subunit Vaccines
#COVID19 #vaccines #Pfizer #BioNTech #Oxford #AstraZeneca #Sinopharm #Novavax #antibody_response #Tcell #Bcell #neutralizing_antibodies #adaptive #immune #response #immunology
https://www.mdpi.com/2076-393X/11/1/51

more #immunology opinions by Brian Laidlaw on #Bcell memory
https://www.sciencedirect.com/science/article/abs/pii/S0952791522001285

#Bcell - #Tcell collaboration in the lung, @wadschma & @dpschreiner @unibasel
https://www.sciencedirect.com/science/article/pii/S0952791523000031

next up to read: really interesting new work by @marionpepper lab

already thinking how we might integrate this into what we learned from Gaya/Milpied labs showing IL4 promotes more permissive GC and "bystander" memory B cells in the tissue

IL-4 downregulates BCL6 to promote memory #Bcell selection in germinal centers | bioRxiv

https://www.biorxiv.org/content/10.1101/2023.01.26.525749v1

#Plasmamembrane topography governs the 3D dynamic localization of #IgM #Bcell #antigenreceptor clusters

Deniz Saltukoglu, Michael Reth et al at University Freiburg use high-resolution #microscopy on the #Burkitt’s Lymphoma model Ramos B-cell line to reveal surface topographical features facilitating screening of #antigens

https://www.embopress.org/doi/10.15252/embj.2022112030

Schematic visualization of the article's synopsis

New from Prof. Shane Crotty and Yu Kato at LJI and Andrew G Letizia at the Naval Medical Research Center:

"Memory B-Cell Development After Asymptomatic or Mild Symptomatic SARS-CoV-2 Infection" https://doi.org/10.1093/infdis/jiac319

Read for a close look at spike #antibody titers, pseudovirus neutralizing antibody titers, and memory #Bcell responses among #SARSCoV2 PCR-positive Marine recruits who either reported asymptomatic or symptomatic infection. #OpenAccess #COVID19 #immunology #InfectiousDisease

Thanks to great work from
Pam Rosato, Hanna Degefu and Tyler Searles, we've updated our #biorxiv preprint led by Kristin Fitzpatrick describing the development and use of an easy and robust bead-based approach to validate and monitor ligand tetramer performance for detection of antigen-specific lymphocytes by #flowcytometry. #antigenspecific #Tcell #Bcell https://www.biorxiv.org/content/10.1101/2022.10.24.513230v2

We are happy to share our new study recently published in the European Journal of Immunology entitled “Clonal composition and persistence of antigen-specific circulating T follicular helper cells”.
https://onlinelibrary.wiley.com/share/author/CWHJTX58MARTN8ISAEQ8?target=10.1002/eji.202250190

Follicular helper T cells (Tfh) are very important to promote #Bcell response and #antibody affinity maturation. Despite, their blood counterparts circulating Tfh (#cTfh) cells are poorly defined in #human in terms of #antigen specificity and persistence.
Little thread 🧵 1/8