Patrick Marks

[Patrick Marks @patrickjmarks]

@daniel_c0deb0t also curious how much extra time a final pass to fully sort each bucket with an arbitrary length comparison would tack on.

[Patrick Marks @patrickjmarks]

@daniel_c0deb0t Cool! Would be interesting to study the bucketing speed vs K -- should be ~10x faster if the tail of each kmer bucket fits in L2 cache, so 2MB/64 < K^4 --> K=7. Might need another pass to sub-sort each K=7 bucket before the normal sort.

[Nick Banovich @NeBanovich]

Small piece of an airway from our first real Xenium run. Over 34M transcripts across a 1.5cm^2 region. Not a bad first shot on goal!

@10xGenomics
#spatialtranscriptomics
#spatialbiology

[Patrick Marks @patrickjmarks]

@jdidion @nomad421 @10xGenomics @sjackman @luizirber Thought experiment: ask a new hire with biofx PhD + python to write a new tool in (and learn) Rust or C++. Which one yields the more useful SW artifact 3 months later? I think Rust wins by a large margin here.

[Patrick Marks @patrickjmarks]

@Maurice_Y_Lee @10xGenomics High-level description here: https://t.co/eiJKcwtg1a

[Patrick Marks @patrickjmarks]

@nomad421 @rust4bio @rustlang Scoped threads might work: https://t.co/00a1ZP594X (also coming soon to std IIUC)

[Mike Stubbington @mjtstubbington]

I'm recruiting a computational biologist to work on detecting analyte panels (RNA transcripts or proteins) across @10xgenomics platforms.

A great chance to lead and be deeply involved in setting the direction of a project.

Get in touch to discuss more!

https://t.co/f8rYd7eIbc

[Senator Scott Wiener @Scott_Wiener]

Climate change is global, but CA must lead.

CA is leading in de-carbonizing our electric grid, but that’s not enough.

CA continues to promote sprawl/driving.

CA continues to produce oil.

CA continues to fail on transit.

Enough. We must show what a sustainable future can be.

[Patrick Marks @patrickjmarks]

@niranjan628496 @arkrause @ShamKakade Wow, very cool!! Congrats!

[Patrick Marks @patrickjmarks]

@SpeakerPelosi I think this is an important step to take

[Justin Amash @justinamash]

This week, I am introducing the Ending Qualified Immunity Act to eliminate qualified immunity and restore Americans’ ability to obtain relief when police officers violate their constitutionally secured rights.

[Patrick Marks @patrickjmarks]

@hjpimentel https://t.co/VGSQ8cOang

[10x Genomics @10xGenomics]

We're excited to announce that the Visium Spatial Gene Expression Solution is now shipping. Our CSO Ben Hindson tells @FierceBiotech how Visium works and which questions it can help scientists answer. https://t.co/yrMmKAwppt #spatial

[Li Wang @liwangomics]

Super excited that our work is out! Great collaboration with @gracexyzheng in which we demonstrated applications of our single cell ATAC product in study of epigenetic regulation using tools like Monocle, Seurat, chromVAR and SpationDE. @10xGenomics @anshulkundaje @RongxinFang

[Patrick Marks @patrickjmarks]

Allele specific HLA counts from single-cell data! Great work from @ChaDarby during her internship @10xGenomics. Also thanks to @k3yavi (our intern last summer) for the Rust pseudoaligner impl. https://t.co/MEP7pPMG8p

[Charlotte Darby @ChaDarby]

Presenting scHLAcount: HLA allele-specific and cell-type specific expression at the same time with single-cell gene expression data! Internship project with @ambarrio @IanFiddes at @10xGenomics
https://t.co/tPtwcxkWCu

[Patrick Marks @patrickjmarks]

@kowitz @VisionZeroSF @MattHaneySF @sfmta_muni @HillaryRonen @sfbike would be great to understand city policy on this. Feels like there is zero enforcement of cars in bike lanes.

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

Aaaaah, when to wake up and see the ‘Van Helsing’ snATACseq from frozen sorted nuclei looks this good! This is happening @SCIL! @UMCCR @10xGenomics @achamess

[Senator Scott Wiener @Scott_Wiener]

The data doesn’t lie:

-CA ranks 49 among 50 states in homes per capita

-CA needs 3.5M new homes by 2025 & is on track to build 1M

-2005-2014: CA added 78% fewer homes per capita than NY

We need millions of new homes & need them near transit/jobs, not sprawl. #SB50 #MoreHOMES

[Howard Chang @HowardYChang]

Delighted to share this work with @WJGreenleaf and @10xGenomics
Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion https://t.co/KJLfJ5EDZS

[Mark Chaisson @mjpchaisson]

This was a huge effort that we are all proud to have out! https://t.co/uyJw8luQhe . There are so many contributors it's impossible to thank everybody........ just kidding, thank you Ashley Sanders, Xuefang Zhao, Ankit Malhotra, David Porubsky, Tobias Rausch, @EugenomeUK...

[Senator Scott Wiener @Scott_Wiener]

It signifies that they‘re unwilling to challenge the status quo: apartments & affordable housing illegal in 70% of SF & $3,600 avg rent

Bottom line: Board of Supervisors didn’t elect me to the Senate. 1M voters did, many of whom struggle with housing. 74% of them support #SB50.