Koichi Hashikawa

Principal computational scientist, Johnson&Johnson innovative Medicine

[Koichi Hashikawa @KoichiHashikawa]

@SunKat_y Congrats, Kathie!!! Fantastic work🎉

[Fabian Theis @fabian_theis]

Excited to share Nicheformer! Led by @Alejandro__TL & @AnnaCSchaar, Nicheformer is a foundation model for single-cell & spatial omics. Its innovation is going beyond disassociated analysis to capture & predict local tissue context at single-cell level. https://t.co/WFFzppmLSW

[Niklas Kempynck @niklaskemp]

Very excited to announce our new preprint together with Nikolai Hecker! Dive into our findings on the conserved regulatory codes shaping cell identity across species. 🧬 [1/n]
https://t.co/l0eCJXTTZ6

[Rahul Satija @satijalab]

As my lab develops Seurat, I wanted to share some thoughts on the important Seurat and scanpy package selection preprint from @Josephmrich/@lpachter 🧵

[Rhiana C Simon, PhD @mouse_braind]

Excited to share that my graduate dissertation work is now finally live on bioarxiv! Take a look if you're interested in learning more about the lateral septum's role in opioid withdrawal: https://t.co/si1xUl32U2

[Jane Chen @jane_y_chen]

I’m so exited to share that Pixel-seq has been published! We describe a stamping method to scale production of polony gels with <1 um resolution for #spatialbiology and a clustering algorithm to segment cells based on their UMIs and transcript similarity. https://t.co/puOJnGRN91

[Rong Fan @RongFan8]

Here comes "spatial-ATAC-seq"!!! A wonderful collaboration between my lab at @YaleSEAS and @GoCasteloBranco at @karolinskainst

#epigenetics #spatialomics #spatialbiology

Spatial profiling of chromatin accessibility in mouse and human tissues | Nature https://t.co/7eSUb08IGN

[Rahul Satija @satijalab]

Our scCUT&Tag-pro and scChromHMM manuscript is out @NatureBiotech! Led by @Bingjie_Zhang_ and @k3yavi, we use surface proteins to integrate data from six histone modifications, RNA and ATAC - and explore chromatin state heterogeneity in single cells: https://t.co/gHb2nR6etN

[Rahul Satija @satijalab]

Our new preprint, led by @YUHANHAO2, introduces bridge integration: cross-modality alignment via a multiomic 'bridge' dataset.

We map single-cell ATAC-seq, methylation, CUT&Tag and CyTOF profiles onto scRNA-seq references- scaling to millions of cells.

https://t.co/fNejASQiWO

[Rahul Satija @satijalab]

We are excited to introduce CaRPool-seq, a new technology that utilizes Cas13 to perform combinatorial single-cell perturbation screens! Check it out, esp. if you're interested in simultaneously perturbing multiple genes and exploring genetic interactions: https://t.co/z0p5HBsIPb

[Rahul Satija @satijalab]

Interested in single cell genomics but need help getting started? Check out my lab's Single Cell Genomics Day on March 4. Talks will feature recent exciting computational and experimental advances and will be livestreamed at https://t.co/zG98gkckMU. Please RT/spread the word!

[Rahul Satija @satijalab]

Our next @cegs_ica virtual seminar is Nov 16 at 12PM EST. @Bingjie_Zhang_ and @k3yavi will introduce scCUT&Tag-pro and scChromHMM - tools to measure, integrate, and analyze histone modification profiles in single cells.

Free registration at: https://t.co/YsJ7Atjzi5

[Vijay Mohan K Namboodiri @vijay_mkn]

Very excited to have this out! Though this is "only" a perspective piece, I personally feel that this is my most important work yet. 1/15 https://t.co/kzLSwn6xKy

[Jane Chen @jane_y_chen]

👇👇 @WhoIsMarkRossi is awesome!

[Mark Rossi @WhoIsMarkRossi]

Happy to share the last of my postdoc work. A huge thank you to the team of @gstuber @MarcusBasiri @koichihashikawa Yoshiko Hashikawa and Jill Liu (not on twitter) and collaborators at Stanford who made it possible 🧵1/6 https://t.co/ZFgD5MXOf9

[Garret Stuber @gstuber]

Latest and final paper from @WhoIsMarkRossi‘s time in the lab. Mark is now at @RutgersU and is recruiting. Get in touch w/him if this work interests you.

https://t.co/Ej5JhtFRYZ

[riichiro hira @rhira2016]

Computational challenges and opportunities in spatially resolved transcriptomic data analysis
https://t.co/AVllQ4x8Ge

[Mark Rossi @WhoIsMarkRossi]

Are you or someone you know interested in studying hypothalamic regulation of feeding? Do you want to do cutting edge science in an inclusive and supportive environment? Apply to work with us today!

[Larry Young @lyoun03]

Here is link to the paper: https://t.co/qBmkIXPA3P 🐵🧠

[Takuma Kitanishi @tkitanishi]

Want to genetically target neurons that integrate monosynaptic inputs from two upstream areas? A simple combination of AAV1 and INTRSECT makes it possible! Happy to share our new preprint. https://t.co/dsAVE7nsAC