Very excited to share my paper just out in
@NATURE
.
KUDOS to
@DanielaJDiBella
from
@ArlottaLab
, Aviv, Fei, Bob Stickels, Gabriele Scalia, and Tommasso Biancalani for the heroic effort!
Hello, Twitter! We're so grateful that 2021 was filled with exciting science and lab fun! For our inaugural tweet, we want to appreciate our lab members and collaborators by sharing some of their amazing work from the past 12 months
Presenting the 2021 Chen Lab Year in Review:
We're excited to share that expansion sequencing (ExSeq) is finally out! ExSeq brings together expansion microscopy and a suite of in situ sequencing technologies, enabling spatially precise in situ sequencing in tissues.
/1
3.
@hattaca
dropped inCITE-seq for jointly measuring nuclear proteins and RNA in single cells, which enables quantifying the direct or indirect effects of TFs on gene expression in vivo (supervised by Aviv Regev)
Excited to share our
#preprint
on inCITE-seq for measuring nuclear protein levels + transcriptome at single cell! Like CITE-seq for cell-surface proteins, we use DNA-conjugated antibodies to measure proteins, but now inside the nucleus + transcriptome.
4. In February, Dylan Cable published RCTD, a computational approach for deconvolving cell type mixtures in spatial transcriptomics data (with
@rafalab
)
New paper out today in
@NatureBiotech
with Linlin Chen, Fei Chen,
@eboyden3
, and many other wonderful coauthors, demonstrating how we can encode the age of an RNA into its sequence to achieve "temporal transcriptomics"
6. In April, collaborator Brian Cleary published Composite In Situ Imaging, a compressed sensing method for imaging transcriptomics
With Aviv Regev &
@eric_lander
+ contributions from Evan M,
@sinhanubhav
,
@ehshabibi
, &
@JamieLMars
Thrilled to share the Kidney Slide-seq pre-print . HUGE thanks to the amazing kidney slide-seq team Teia Noel,
@qbw_128
, and
@haiqi_chen
. Thanks to Evan Murray for the Slide-seq arrays,
@SilvanaBazua
, and
@AnnaGreka
, Fei Chen, and
@macosko
for mentorship!
9. In November,
@haiqi_chen
released the first spatial transcriptomic atlas of mammalian spermatogenesis
Haiqi is starting his own lab
@UTSWNews
and is recruiting at all levels!
10. Not a paper, but possibly even more exciting: in December,
@soph_liu
was awarded an
#ImpetusGrant
with Karin Gustafsson from the Scadden lab to study immune cell aging
11. And right before the holidays, Tongtong Zhao and
@z_chiang
adapted Slide-seq beads to measure DNA and used this technique to study clonal heterogeneity in cancer (with
@JD_Buenrostro
)
Just released
@Nature
: slide-DNA-seq, our new method for spatial DNA sequencing in tissues 🧬
Excited to add a genetic dimension to the rapidly expanding spatial toolbox with the tech dev superteam of Tongtong Zhao,
@JD_Buenrostro
&
@insitubiology
(1/6)
On the other hand, we're thrilled to have new faces Gio, Julie,
@dawnchenx
,
@VerenaVolf
, Mehdi, Yifan,
@Luyi_T
, Simon, Chen, &
@AndyRusss
!
Looking forward to more exciting science and lab fun in 2022! Happy New Year!