Hannah Pliner

Data scientist in single cell genomics at @BrotmanBaty and @uwgenome

[Cole Trapnell @coletrapnell]

Four years' work, 178 billion sequencing reads, and nearly 5 million cells went into constructing atlases of gene expression and chromatin accessibility in human development, out now.

[Silvia Domcke @sdomcke]

First foray into single cell genomics, first postdoc paper, first tweet! Excited to share our human cell atlas of fetal chromatin accessibility, a very fun collaboration with @JShendure @ahill_tweets Riza Daza @cusanovich and others. https://t.co/YRzd4zdtpF (1/5)

[Jose L. McFaline-Figueroa @joselmcfaline]

I am very happy to share the official announcement!!! I look forward to starting my lab @ColumbiaBME.

[Cole Trapnell @coletrapnell]

Happy to report that our paper on using UMAP to analyze many mutants is now out in Nature Communications https://t.co/XhEPIfPhMl; we used UMAP to group transcriptomes of >1000 single-gene deletions of yeast and were able to group pathways, protein complexes, and interactions.

[Lea Starita @lea_starita]

As the molecular team behind the @seattleflustudy, @debnick60 and I are excited to begin COVID-19 community testing in partnership with @KCPubHealth through #SCANCOVID https://t.co/7t0fdJQ6Xg Resources and thread 1/8

[Helen Chu @HelenChuMD]

It’s official. @seattleflustudy has shifted focus to supporting public health response to #COVID19 to launch SCAN for home based swab collection. @trvrb @lea_starita @JShendure @famulare_mike @debnick60 Jan Englund Michael Boeckh @mjonasrieder @UWMedicine

[Trevor Bedford @trvrb]

Thanks to @seattleflustudy and @UWVirology, we have new genomic data on the spread of #COVID19 in Washington State with 2 new #SARSCoV2 genomes sequenced today, bringing the total number of WA genomes to five. 1/8

[Trevor Bedford @trvrb]

Thanks to rapid global data sharing of #SARSCoV2 genomic data via https://t.co/tbVb4MAGpy, we can reconstruct large and small scale patterns of #COVID19 spread. This is a thread discussing this intersection of large and small. 1/7

[Cole Trapnell @coletrapnell]

Our paper studying how to infer gene regulatory networks based on single-cell RNA-seq data is out today in Cell Systems: https://t.co/r5Q9zTWuvZ. Led by @Xiaojie_Qiu and Arman Rahimzamani from @sreeramkannan's group. We explore the limits of current tech for network inference.

[Trevor Bedford @trvrb]

The team at the @seattleflustudy have sequenced the genome the #COVID19 community case reported yesterday from Snohomish County, WA, and have posted the sequence publicly to https://t.co/tbVb4MAGpy. There are some enormous implications here. 1/9

[Brian Searle @briansearle]

The new paper from @lkpino and @MacCossLab has been really impactful on my work. Easily drawing full calibration curves for every peptide in a proteome has completely changed collaborator conversations where they insist proteins are present or absent! https://t.co/jwgs5giZji

[Katya Cherukumilli @katyac_h2o]

@SRsrivatsan just published his first Ph.D. paper (https://t.co/gIYj4yRzKy), a culmination of endless perseverance, incredible mentorship, and collaborative teamwork-congrats all!

My Haiku summary of #sciPlex:

One experiment
Many single cells profiled
Future of drug screens

[Cole Trapnell @coletrapnell]

Extremely excited to announce sci-Plex, described in a new paper out today https://t.co/LJfCLXDY0B! Joint work with @JShendure lab, led by a crack team: @SRsrivatsan, @joselmcfaline, and @vram142. With sci-Plex, we can profile expression in single cells from thousands of samples.

[Hannah Pliner @HPliner]

@RAEinforma #dudaRAE ¿Cuál es la diferencia entre: 'Me olvidé ...' y 'Se me olvidó ...'? ¿Ambas son correctas? Por ejemplo: 'Me olvidé el teléfono.' o 'Se me olvidó el teléfono.' ¡Gracias!

[allen institute @AllenInstitute]

How do we grow from a single cell to the trillions of cells that make up an adult body? A new @DR_E_A_M Challenge, spearheaded by @JShendure & @ElowitzLab, is launching to help find answers.

https://t.co/12X09JRyuN

[Hannah Pliner @HPliner]

@AlexTamburino Thanks!

[Cole Trapnell @coletrapnell]

Our manuscript on Garnett, which allows you to rapidly annotate cells by type in your scRNA-seq data, is now out in Nature Methods: https://t.co/gIwAs0in5Q. In response to reviewer comments, @HPliner made lots of improvements over the pre-print.

[Martin Hemberg @m_hemberg]

News! Garnett and CellAssign are out in @naturemethods . Views! They both look great! Read more here https://t.co/Klk51Plfme @THJimmyLee @coletrapnell @kieranrcampbell

[Yi Yin 殷毅 @yeastyin]

Happy to share our sci-L3 (previously called sci-LIANTI), which stands for "single-cell combinatorial indexing", "linear amplification" and "3-level barcoding" from the happiest postdoc lab ever: @JShendure lab! https://t.co/ybGNnGDd4s

[Cole Trapnell @coletrapnell]

A new study led by @joselmcfaline is now out in @NatureGenet: https://t.co/xTUZUKQcKA. José used single-cell RNA-seq and multiplexed CRISPR screening to dissect the molecular regulation of epithelial-to-mesenchymal transitions.