Shifang Li

Focus on investigating how genetic and non-genetic factors affect immune response variations using systems immunology and functional genomics approach.

[Shifang Li @LeeFruce]

Cool method for cell-type specific eQTLs.

[Minhui Chen @chen_cmh]

CIGMA is out in Nature — A linear mixed model to unbiasedly characterize cell-type-specific eQTLs. Work advised by @andywdahl and a lot of help from @xinpei_w
https://t.co/uT8Ot6mnzs

[Shifang Li @LeeFruce]

GREAT REVIEW

[Nature Reviews Genetics @NatureRevGenet]

New online! Towards improved fine-mapping of candidate causal variants https://t.co/3ABJYchDXq

[YukinoriOkada @okada_yukinori]

Single-cell ＆dynamic eQTL PBMC of Japanese PBMC🧬🩸🖥️. Somatic mutations (mosaic chromosomal alteration; mCA, loss of Y; LOY, mitochondria heteroplasmy) projected to single cell resolution by @RyuyaEdahiro @Go_Sato_UT & team🤼. Now @NatureGenet ㊗️🎉
https://t.co/TQ04bjBNIc

[Shifang Li @LeeFruce]

Amazing results from TenK10K.

[Anna Cuomo @AnnaSECuomo]

📢 new preprint alert: So so excited to share our analysis on the impact of common and rare variants on single-cell gene expression in blood, using WGS and scRNA-seq data from nearly 2,000 individuals and 5.4m cells as part of TenK10K phase 1 🧬https://t.co/pOb86zbfDd
🧵👇 (1/n)

[Shifang Li @LeeFruce]

Important resource for understanding immunity and genetic diversity using non-European

[Shyam Prabhakar Lab @shyam_lab]

Just out in Cell: the Asian Immune Diversity Atlas (AIDA) is a 5-nation single-cell blood atlas. We show that humans are remarkably diverse in gene expression and cell phenotype, with disease implications #healthcaredisparities #PrecisionMedicine [https://t.co/Rz3ENKb1vm]. [1/14]

[Shifang Li @LeeFruce]

Super interesting! Linking spatially with GWAS

[nature @Nature]

Nature research paper: Spatially resolved mapping of cells associated with human complex traits

https://t.co/0d0HWN7KpY

[Agingdoc🩺Dr David Barzilai🔔MD PhD MS MBA DipABLM @agingdoc1]

Epigenetic ageing clocks: statistical methods and emerging computational challenges

Andrew Teschendorf, @prof_horvath

https://t.co/Xn4tzQUD2q

[Shifang Li @LeeFruce]

Very interesting methods for single-cell QTL analysis👏

[Jimmie Ye @yimmieg]

1/🧵Excited to re-introduce Memento in (https://t.co/mxycmsOTkr), a scalable method for differential analysis of scRNA-seq data. It provides first-in-class performance in statistical power and calibration for comparing differences in mean, variability, and gene correlation.👇

[Shifang Li @LeeFruce]

@BrodinPetter Thanks. Absolutely, more study is also needed to investigate the effect of genetic factors at the population level.

[Shifang Li @LeeFruce]

Interesting study regarding the sex differences in immune response.
Another two papers published this year in Nature and Science, respectively, https://t.co/nJjsSr5GkU; https://t.co/h4wFi12GcS.

[Petter Brodin @BrodinPetter]

New paper out @Nature - why are males more vulnerable to severe infections (ex acute #COVID), while females suffer more from autoimmunity (SLE, MS etc and also #LongCovid)? sex chromosomes or hormones?

Here we studied adaptation of human immune systems to gender-affirming testosterone treatment in trans-men assigned female sex at birth: https://t.co/HzCQI6GUwn

[Shifang Li @LeeFruce]

Very interesting study👏👏👏 The variance pQTL could serve as an important complementary method to the expression pQTLs in proteogenomic studies. Maybe it could also apply to FACS datasets😀

[Benjamin Sun @ben_b_sun]

Excited to share our work now in @NatureComms. Variance protein QTLs in @uk_biobank uncover gene interactions spanning female #physiology, #blood groups, white cell indices.

https://t.co/m6DL7MICDQ

Shout out to my co-authors and former Biogen team.

[Prof. Debby Bogaert 💙 @DebbyBogaert]

Proud to see our paper on ‘Host and environmental factors shape upper airway microbiota and respiratory health across the human lifespan’ publishes today in @CellCellPress
https://t.co/YHxtaLRwgY

[Clint Miller @clintomics]

New review from ⁦@coletrapnell⁩ summarizing major statistical inference methods applied to single-cell, spatial, perturbation data to study gene function in healthy and disease states ⁦@NatureRevGenet⁩ https://t.co/1tbNXAyena

[nature @Nature]

Nature research paper: A disease-associated gene desert directs macrophage inflammation through ETS2 https://t.co/axlOvslvMN

[Immunity @ImmunityCP]

Online now: Integrating population and single-cell variations in vaccine responses identifies a naturally adjuvanted human immune setpoint https://t.co/sa8bwpWeTY

[Eric Topol @EricTopol]

Our most complex biologic system—immunity—is reviewed in 3 new @CellCellPress papers, open-access
Adaptive
https://t.co/rJRBnV7u8I
Innate
https://t.co/PMKA6KgL7R
New insights
https://t.co/rJRBnV7u8I @RMedzhitov

[Clint Miller @clintomics]

Cell-type-specific and disease-associated expression quantitative trait loci in the human lung across 66 IPF individuals and 48 unaffected donors..very nice work from ⁦@NeBanovich⁩ ⁦@davisjmcc⁩ and others ⁦@NatureGenet⁩ https://t.co/qO455d89YQ

[Immunity @ImmunityCP]

Multi-omics analysis of innate and adaptive responses to BCG vaccination reveals epigenetic cell states that predict trained immunity https://t.co/Y8eW4WtXQp

[Global Immunotalks @globalimmuno]

Please distribute 2024 flyer!

[Cell @CellCellPress]

Now online! Multi-omics analysis of mucosal and systemic immunity to SARS-CoV-2 after birth https://t.co/fQzsrB5ooJ