Souradeep | সৌরদীপ
@SouradeepSarkar
Followers
400
Following
2K
Media
26
Statuses
838
Postdoc in @PhysPlanaria lab. Alumni: @NCBS_Bangalore + @DBT_InStem. Interested in the evo-devo of organismal regeneration.
Stanford, CA
Joined September 2009
Our most recent study shows that stem cells in Schmidtea mediterranea do not rely on physical contacts or fixed structures to maintain their identity and regenerative potential. https://t.co/GnRewPUvtN
1
7
27
It's a wrap. The Biannual ISRB Meeting has ended. Stay tuned this week as we reflect on exciting science, honour our Lifetime Achievement and Rising Star Awardees and reflect on all we have learnt about regeneration this past week. #ISRB2025
0
10
21
Where does pattern come from inside cells? in this revised preprint, @aralbright93 shows that regionalization of mRNA in a Stentor cell depends on dynein motors and the microtubule cytoskeleton https://t.co/55iqjnJNxp
3
21
100
How do organelles fit together inside a crowded cell? Answering this question requires a way to image many organelles in a whole cell at high resolution with high throughput. Our new preprint shows how to do this in yeast using soft x-ray tomography https://t.co/PbRajXb9sj
5
66
308
Cell types can be grouped into families. What sets them apart? Our scATACseq/ML proposes cell type-specific genome access diversifies through non-conserved combinations of sequence motifs drawn from 'motif vocabularies' conserved for individual families. https://t.co/a7TvqSgaQD
3
51
206
Excited to share our work on live imaging of the entire course of body regeneration in the marine flatworm Macrostomum using transgenics & advanced microscopy. We hope these tools can unlock the unique biology of this fascinating intertidal animal. https://t.co/NNbT30ZOzo
7
19
73
Our new bioRxiv! The Hydractinia Cell Atlas. Neither the hermit crab, nor the dead mollusc that once occupied the shell, but the colonial cnidarian growing on top. Can we learn more about how this association evolved using single-cell analysis? 🧵👇 https://t.co/09yV0ufSiZ
9
40
94
Planarians never cease to surprise - we show that epidermal cells undergo basal extrusion and a 'death march' to be digested by gut phagocytes. Thus, self-digestion is not only part of pathological cell clearance, but also of steady-state tissue turnover. How? Lots to discover :)
"Epidermal turnover in the planarian Schmidtea mediterranea involves basal cell extrusion and intestinal digestion" @mpi_nat Tobias Boothe, @DannyJRLee, @clemauksch, & @rinklab Read more in @CellReports: https://t.co/0p2ebk2NzA
2
9
33
@Stanford did a story on @Eliott_Flaum and my adventures on unraveling a mystery that bothered us for a long time. Inspired by “recreational mathematics” - hoping we can establish “recreational biology” - living curiosities explored for its own right.
The tiny predator Lacrymaria olor owes its shape-shifting ability to an “origami-like” cellular architecture, a new Science study finds. The results offer a glimpse into geometrical control of behavior in single cells. Learn more in this week's issue: https://t.co/eZq9RMZwKt
1
6
29
We propose ctQC( https://t.co/hm2OfLoDqs), a data-driven method to filter low-quality cells from scRNA & spatial omics data! Apart from empty droplets it efficiently eliminates soup/debris & damaged cells improving downstream biological inferences. Comments & suggestions welcome!
We finally wrote up our cell type-specific QC (ctQC) protocol for scRNA (and spatial)-seq data: https://t.co/KLDzc77ZH9 . Comments welcome! In a nutshell: we show that sc QC cutoffs should be strict, cell type-specific and data-driven. 1/
4
5
15
In flatworms, Neoblasts are the only dividing cells outside the reproductive system... REALLY? In collaboration with @PhysPlanaria, we show that things are not so simple. Here's our preprint on the intriguing stem cell system of the Catenulid Stenostomum https://t.co/OhvwFKaSNH
3
25
63
Coordinated wound responses in a regenerative animal-algal holobiont | Nature Communications
nature.com
Nature Communications - The term ‘holobiont’ refers to a multicellular organism and its microbial symbionts. Whether and how symbionts react to host injury and how cellular responses...
0
6
27
Imaging the entire course of tissue regeneration requires transparent animals, efficient transgenesis & microscopes that can image free-behaving animals. Here we present a toolkit and reveal dynamic cellular processes during regeneration of Macrostomum.
biorxiv.org
Live imaging of regenerative processes can reveal how animals restore their bodies after injury through a cascade of dynamic cellular events. Here, we present a comprehensive toolkit for live imaging...
1
9
53
Hello folks. Did anyone transfer from F1 OPT to J1 visa while staying in the US? Asking for a friend.
0
0
4
Super excited to share my PhD work and my 1st first author publication! We have some exciting observations about how macrophages change during tumour progression, whether they can cross-present tumour antigens and how Tim4 participates in it!
Very happy to share our last work showing cross-presentation of tumor antigens by Tim4 macrophages 😊! congratulations to Sonal and the team👏👏@Sonaljoshi576 @AIRC_it @ICGEB
https://t.co/EmUJdBJ0s2
1
3
10
Meet the amazing acoel! Getting cut in half is no problem for this marine flatworm—within minutes, its wound seals up. In a couple days, it’ll have a whole new tail. Discover more about their surprising regenerative abilities in #DeepLook’s new video: https://t.co/Imj4IdwOwa
0
6
6
My first postdoc paper is live. This was a very fun project to work on, and the end result....GLOWING SEA URCHINS. Details below for how we made the first stable transgenic sea urchin. @Hamdounlab @evan_tjeerdema @svenja_kling Yoon Lee, Emilio Romero https://t.co/NDIbe2V4KU
biorxiv.org
Stable transgenesis is a transformative tool in model organism biology. While the sea urchin is one of the oldest animal models in cell and developmental biology, it has relied on transient manipul...
3
14
50
How to trace developmental potential on an absolute scale from single cell expression data? We are thrilled to announce that CytoTRACE 2 is out on bioRxiv! @AaronNewmanLab
https://t.co/Gsc7baJS6A
https://t.co/E06UMDFIRs
3
42
157
Congratulations @Sonaljoshi576! So proud of you 🥂
Congrats to explosive Sonal for the completion of her PhD!!! It has been a great ride, I wish you all the best!!! @Sonaljoshi576 @ICGEB
1
0
9