Xiting Yan

computational biologist, mom of 3 girls, music and sports lover

[Xiting Yan @XitingY]

@KaminskiMed @GenomeBiology @YaleIMed @YalePCCSM @yaledatascience @AurelienJustet @ivanorosas @RongFan8 Thank you, Naftali for all the support and inspirations!

[Xiting Yan @XitingY]

Our new method to deconvolve low resolution dpatial data is out! It is the first method to simultaneously consider platform effects, small number of cell types per spot and spatial correlation of the cell type composition across spots. https://t.co/5ZwCTRwshm

[Naftali Kaminski @KaminskiMed]

Important ‼️ This tweak to #CDC policy “Everyone in areas of substantial/high transmission should wear a mask, even if vaccinated”means any place indoors in the US - as cases are increasing EVERYWHERE - back to #MaskUp indoors

[Xiting Yan @XitingY]

Our largest EVER transcriptomic study of #sarcoidosis patients is out! We learned so much from this high-quality data but the data is so rich that there is still so much more to do with the data to learn more for better treatment of Sarcoidosis. TBC... #GRADS #CureSarcoidosis

[Naftali Kaminski @KaminskiMed]

1/n Finally! Biggest ever RNAseq study of #sarcoidosis is out - reveals associations of distinct transcriptional programs with major phenotypic traits ➡️suggests distinct novel Sarcoidosis endotypes #GRADS #CureSarcoidosis #SarcBALRNAseq see thread below https://t.co/8YmG2hqbvY

[Naftali Kaminski @KaminskiMed]

@XitingY @mivukmiro @YaleIMed @YaleMed @ERSpublications @StopSarcoidosis @sarcoid_papers @ATS_AII @HongyuZhao2 @YaleData 🙏 when I wrote the grant, even when we started recruitment, I never expected it to take that long - but when I looked at the data, I said 'it is so complicated, how will we finish?' but we did it #together and ➡️this will accelerate #Sarcoidosis research https://t.co/8YmG2hqbvY

[Xiting Yan @XitingY]

@KaminskiMed @mivukmiro @YaleIMed @YaleMed @ERSpublications @StopSarcoidosis @sarcoid_papers @ATS_AII @HongyuZhao2 @YaleData Thank you Naftali for all the inspiring suggestions, discussions, patience and leadership! I'm very proud to be part of this study and very thankful for the chance to work with this amazing group of people!

[Naftali Kaminski @KaminskiMed]

9/n The greatest credit for #SarcBALRNAseq goes to shared co-first authors - Drs Vukmirovic & Yan - this was a Herculean effort - I feel fortunate and grateful to have worked (& keep working with both of them) 🙏 #sarcoidosis #teamscience #bigdata https://t.co/8jQGcz4mxG

[Naftali Kaminski @KaminskiMed]

8/n # of authors #SarcBALRNAseq does not come close to # people deserving credit - collaborators from Yale, Pitt, Hopkins, Penn, Vanderbilt, NJH, Az, MUSC, UCSF, Hannover, #sarcoidosis patients, @nih_nhlbi - THANKS ALL #PeopleIlookUpTo #TeamScience https://t.co/6XS3ibhcIh

[Naftali Kaminski @KaminskiMed]

7/n All #SarcBALRNAseq data available on GEO database - GSE109516 - All analysis codes & results available on GitHub & online supplement #DataSharing #BigData. We hope to generate a #SarcoidAtlas data mining tool soon - stay tuned but for now check out https://t.co/W327SGYEq5

[Naftali Kaminski @KaminskiMed]

6/n Sex in #SarcBALRNAseq Results ➡️ while 53% of participants were women - we did NOT find any significant effects of gender on gene expression related to #sarcoidosis traits. Surprising - worth a deeper dive! #NegativeResultsMatter #SABV https://t.co/8jQGcyMLG8

[Naftali Kaminski @KaminskiMed]

5/n #SarcBALRNAseq Results ➡️ further study of gene modules suggested novel molecular endotypes of #sarcoidosis. 2nd cohort validated supervised & unsupervised results - Thanks Dr. Antje Prasse & team 🤝👏 #Collaboration #DataSharing https://t.co/8jQGcyMLG8

[Naftali Kaminski @KaminskiMed]

4/n #SarcBALRNAseq Results ➡️ unsupervised analysis identified distinct modules of gene expression associated with distinct combinations of phenotypic traits, exposures, and geographic location in #Sarcoidosis - I think this is important https://t.co/8YmG2hqbvY

[Naftali Kaminski @KaminskiMed]

4/n #SarcBALRNAseq Results ➡️ genes associated with race & disease severity in #sarcoidosis were enriched for aberrant lipid trafficking,
arachidonic acid production, SCAP/SREBP control of lipid metabolism - need to validate, explore deeper https://t.co/8YmG2hqbvY

[Naftali Kaminski @KaminskiMed]

3/n #SarcBALRNAseq Results ➡️ - In #Sarcoidosis TH1, TH17 transcriptional programs associate with hilar lymphadenopathy, TGFB1, MTOR signaling with parenchymal involvement, IL7 and IL2 airway involvement and so much more https://t.co/8YmG2hqbvY

[Naftali Kaminski @KaminskiMed]

2/n This is the 1st key #Sarcoidosis paper of the @nih_nhlbi funded GRADS multicenter study (https://t.co/6XS3ibhcIh >250 research bronchoscopies, extensive phenotyping, RNAseq, microbiome, virome) below are some of the #SarcBALRNAseq insights ➡️ https://t.co/goI8DxwCmh

[Xiting Yan @XitingY]

Need to impute your scRNAseq data? Try our method. https://t.co/JPw8xUZcpW

[Xiting Yan @XitingY]

@KaminskiMed @HongyuZhao2 @YalePCCSM @YaleSPH @yaledatascience @PLOSCompBiol @Sc_Ninjas @scell_papers @jonas_schupp @singlecellomics Thank you Natalie for the kudos!

[Xiting Yan @XitingY]

⚡️ “first corresponding authored paper”

https://t.co/Xcl2JkKaSm