Sabitlenmiş Tweet
Check out our now published investigation into how experimental design and analysis choices can affect downstream results when analyzing imaging-based spatial transcriptomics data. rdcu.be/dKFby
English
Lyla Atta
49 posts
Lyla Atta
@lylaatta
MD-PhD Candidate @JHUBME. spatial transcriptomics at https://t.co/S5zk0oAaQ1. she/her
Baltimore, MD Katılım Aralık 2020
399 Takip Edilen286 Takipçiler
After precisely 4 years of grad school, I'm excited to share that the FIRST PEER REVIEWED PAPER FROM MY PHD HAS LANDED!
cell.com/cell-systems/f…
Indulge me in some back-story. 🧵
English
Thanks to @kalen_clifton, @manjari_017, @Gohta_Aihara, who contributed to this project, to @JEFworks for guidance and mentorship, and to the reviewers for providing thoughtful feedback that greatly improved the work!
English
Check out our now published investigation into how experimental design and analysis choices can affect downstream results when analyzing imaging-based spatial transcriptomics data. rdcu.be/dKFby
English
Excited to share some updates and recommendations on normalization approaches for #singlecell imaging-based targeted #spatialtranscriptomics data. See more in our pre-print: bit.ly/jefworks-imSRT…
Dr. Jean Fan@JEFworks
We've updated our #bioRxiv preprint investigating the potential impact of #geneexpression normalization methods with different gene panels in analysis + interpretation of #singlecell imaging-based targeted #spatialtranscriptomics data. Check it out: biorxiv.org/content/10.110… 🧵1/n
English
@mdredze absolutely amazing feeling! must figure out how to accidentally do this again soon 🙃
English
Found out I had blocked off 2hrs in my calendar for a thesis committee meeting that had to be rescheduled, but forgot to cancel original hold.
BONUS TWO HOURS! 🤩
English
Lyla Atta retweetledi
Check out our new #bioinformatics method to characterize cell-type spatial relationships across length scales in #singlecell #spatialomics data
Preprint: biorxiv.org/content/10.110…
Software: github.com/JEFworks-Lab/C…
Led by @rdsantospeixoto + @bf_miller_ w/ @BruskoMaigan +team
🧵👇
English
We hope that this work is useful to folks looking to leverage the high throughput and spatial resolution of single-cell imaging-based spatial transcriptomics' technologies to ask new biological questions that help us understand how cells behave within their spatial contexts.
English
Given advancing imaging-based spatial transcriptomics tech and many new datasets to interrogate spatial biology, we (@kalen_clifton, @manjari_017, @JEFworks, and I) wanted to explore how experimental design choices and gene expression normalization can affect downstream analyses.
English
Happy to share some of what I've been working on recently!
See 🧵 below for a summary.
And this 🧵for more details: twitter.com/JEFworks/statu…
And check out the preprint for all the details: biorxiv.org/content/10.110…
#spatialtranscriptomics #singlecell #scRNAseq
Dr. Jean Fan@JEFworks
How should we normalize #singlecell #geneexpression counts from imaging-based #spatialtranscriptomics? We kept getting asked this so we wrote a paper about it! #bioRxiv preprint: biorxiv.org/content/10.110… Led by @lylaatta w/ @kalen_clifton + @manjari_017 #AcademicTwitter 🧵1/n
English
@JohnsHopkins JHU closed on-site employee COVID-19 testing due to "reduced demand". I was repeatedly denied testing after a known exposure. @JohnsHopkinsSPH claims to be the #1 school of public health, but JHU refuses to provide access to public health protections during an ongoing pandemic.
English
.@JohnsHopkins says that termination, discrimination, sexual assault, and health and safety don't deserve protections in a contract. We demand better and are willing to fight for our workplace rights. #NotSafeatJHU #MyRightsMyContract #JohnsHopkins
English