Ida Lindeman

Very happy to share our latest preprint, where we address the relationship between systemic and gut IgA. See link below and details in 🧵. Huge thanks to everyone involved! biorxiv.org/content/10.110…

Generation of circulating autoreactive pre-plasma cells fueled by naive B cells in celiac disease dlvr.it/T5DBjy

Tissue proteomics with clinical value in #celiac disease: - bitly.ws/3fGa2 Great work Anette Johansen and thank you collaborators in particular @SandveGeir for expert ML knowledge! @CeliacDotOrg @UniOslo_MED @Coeliac_UK @AGA_Gastro @coliakiforening

Very happy to share this story on autoreactive B cells in celiac disease together with @IdaLindeman @LeneHoydahl @ChristophAsb @LouiseFRisnes @JCoDiRC. Here, we identify a population of circulating IgA-switched B cells specific to the self-antigen transglutaminase 2 (TG2).

Very happy to share that our paper on anti-gluten antibodies in celiac disease is out now in @CellReports. The study was led by Chunyan Zhou @JCoDiRC @UniOslo_MED and was a great collaboration with the Buus lab @UCPH_health. Details in 🧵 cell.com/cell-reports/f…

New work from our @UiO_LifeSci ImmunoLingo convergence environment in which we leverage linguistics to formalize the antibody sequence language. arxiv.org/abs/2209.12635. Work led by @MaiSpaceHa, @PRobertImmodels, @pandaisikit. See🧵below by @MaiSpaceHa for details.

We're looking for an enthusiastic #postdoc to join the Sollid group (med.uio.no/klinmed/englis…) at the University of Oslo through the #ScientiaFellows program to investigate genetic polymorphisms in adaptive immune receptors. Please share and DM if interested! #postdocjobs #AIRR

We used scRNA-seq to assess the combined transcriptome and Ig repertoires of CSF B cells in MS. This revealed a stereotyped B-cell response using IGHV4/IGKV1 in patients carrying certain IGHC alleles! @EurJImmunol #MS onlinelibrary.wiley.com/share/author/G…

Happy to share this story on anti-gluten antibodies in celiac disease. biorxiv.org/content/10.110… The project was led by Chunyan Zhou @JCoDiRC @UniOslo_MED and is the result of a long-standing collaboration with the Buus lab @uni_copenhagen. Main findings are summarized below.

Happy to share our work on multi-dimensional comparison of immune repertoires. Amazing work by @cedricrweber. Great collaboration with Xiao Liu, @ReddyLab_ETHZ, @mkuijjer, and, as always, @SandveGeir. Main findings in 🧵. biorxiv.org/content/10.110….

So you ran a single-cell RNA seq experiment...now what? Ludvig Sollid @JCoDiRC and @IdaLindeman reviews single-cell approaches in the investigation of celiac disease: nature.com/articles/s4138… #Celiac #SingleCell

We just released CompAIRR – a tool that reduces greatly the longstanding computational bottleneck of identifying shared identical and similar sequences among large sets of immune repertoires. All the details/links are in the thread below. Feedback is very welcome! @airr_community

Another new preprint! We combined virtually-docked 3D-antibody-antigen binding complexes with an unbiased in silico oracle to explore at unprecedented resolution the principles of ML-based antibody design with respect to affinity, conformational epitope, and developability. 1/2

Happy to share our preprint: "A billion synthetic 3D-antibody-antigen complexes enable unconstrained machine-learning formalized investigation of antibody specificity prediction" biorxiv.org/content/10.110… Check out Absolut! database+software to simulate more github.com/csi-greifflab/…

Our review on "Immunoglobulin germline gene variation and its impact on human disease" is out. Great collaboration with @immuno_ivana and Ludvig Sollid @JCoDiRC. @airr_community Link: nature.com/articles/s4143…

AIRR ML: Did you know that baseline machine learning methods can perform well even when disease-associated signals are present in only 2 out of 100 000 receptors in diseased adaptive immune repertoires? Check our latest preprint: biorxiv.org/content/10.110… 1/10

Check out our new paper on B-cell responses in multiple sclerosis! We used scRNA-seq and BCR-reconstruction to characterise B-lineage cells in the CSF, and identified stereotypical B-cell responses linked to IgG constant region polymorphisms. biorxiv.org/content/10.110…

1/11 Did you ever wonder whether individuals have the same probability of generating a given antibody sequence? Turns out, they do not – not even twins! We showed that humans – including monozygotic twins – have unique VDJ recombination rules. biorxiv.org/content/10.110…

Over the moon that our study on the predictability of antibody-antigen binding is featured on the cover page of @CellReports! The cover was designed by our resident scientific illustrator @pandaisikit (who's also the first author). Link to paper: cell.com/cell-reports/f…

Beyond happy to share our @immuneml platform, which streamlines your machine learning analyses on adaptive immune receptor repertoire data. It can be extended in all possible ways. Fantastic teamwork with the @SandveGeir lab. Let us know what you think! @airr_community 1/2