Daphne Superville
@dasuperville.bsky.social
📤 111
📥 218
📝 4
UCSF PhD candidate @gogalab | MIT ‘17 🦫 | 🇦🇷 🇺🇸|
#metastasis
#tumormicroenvironment
pinned post!
Running NMF on your scRNAseq data? Check out my updates to Lyndsay Murrow's DECIPHER-seq package, now compatible with Seurat v5 objects and rliger v2!
github.com/dasuperville...
loading . . .
GitHub - dasuperville/DECIPHER-seq-v2: Data and code to reproduce results from DECIPHER-seq paper. Updated for use with Seurat v5 objects and rLiger v2.
Data and code to reproduce results from DECIPHER-seq paper. Updated for use with Seurat v5 objects and rLiger v2. - dasuperville/DECIPHER-seq-v2
https://github.com/dasuperville/DECIPHER-seq-v2
12 months ago
1
8
5
reposted by
Daphne Superville
Johanna Joyce
about 13 hours ago
Chronic inflammation has long been linked to cancer, but how is that history retained in the tissue? In a new
#Nature
study, Nagaraja et al show that colitis leaves a lasting epigenetic memory in colonic stem cells, which persists after inflammation resolves & primes for subsequent tumor growth 🧪🔬
loading . . .
Remembrance of inflammations past
Chronic inflammation increases the risk of colon cancer. This inflammation drives epigenetic changes in the nucleus of stem cells that promote tumour formation.
https://www.nature.com/articles/d41586-026-00639-0
0
27
11
reposted by
Daphne Superville
Journal of Experimental Medicine
about 17 hours ago
Kuhn,
@maxkrummel.bsky.social
et al. demonstrate how local gene editing of cancer-associated fibroblasts alters their cell state and, subsequently, the cellular tumor microenvironment
rupress.org/jem/article/...
#TME
#CAFs
#TumorImmunology
0
3
2
reposted by
Daphne Superville
Journal of Experimental Medicine
about 19 hours ago
#Hypoxia-inducible
protein 2 mediates metabolic adaptation of Ly6ChighLy6Glow
#monocytes
after
#stroke
. New study from Weijie Chen, Xin Wang, Tingting Huang, Weifeng Yu, Florent Ginhoux, Peiying Li (Shanghai Jiao Tong University) and colleagues:
rupress.org/jem/article/...
#Neuroinflammation
0
1
2
reposted by
Daphne Superville
Waggoner Lab
3 days ago
@biorxivpreprint.bsky.social
systematic mapping of immune landscape alterations during sequential lymph node metastasis in humans provides essential insights for understanding cancer metastasis
www.biorxiv.org/content/10.6...
@universitypress.cambridge.org
0
0
1
reposted by
Daphne Superville
Waggoner Lab
6 days ago
AP-1 mediates cellular adaptation and memory formation
@natcomms.nature.com
@pennmedicine.bsky.social
@arjunraj.bsky.social
@penngenetics.bsky.social
www.nature.com/articles/s41...
0
22
8
reposted by
Daphne Superville
Eugene Vinitsky 🍒
10 days ago
For a recent lab meeting, I wrote up a grab bag of ways to think about your development as a researcher during a PhD:
emerge-lab.github.io/papers/an-un...
Sharing in case folks find it useful or have feedback!
loading . . .
https://emerge-lab.github.io/papers/an-unsolicited-guide-to-good-research.pdf
6
99
17
reposted by
Daphne Superville
Eric Topol
13 days ago
The reactivation of herpes simplex virus (HSV-1, not only herpes zoster) may be tied to accelerated aging and dementia, and account in part for the mechanism of Shingrix vaccine''s protection
www.wired.com/story/shingl...
loading . . .
The Shingles Virus May Be Aging You More Quickly
Evidence suggests reactivations of the varicella-zoster virus may accelerate aging and raise dementia risk. Now scientists want to know if vaccines and antivirals could help protect the brain.
https://www.wired.com/story/shingles-virus-aging/
7
260
94
reposted by
Daphne Superville
Journal of Experimental Medicine
14 days ago
#Myeloid
cells infiltrate tumors from early transformation to advanced disease; however, their plasticity complicates therapeutic targeting. Nogales-Pons et al.
@casanova-acebes.bsky.social
review emerging technologies that uncover unexpected cellular states & functions
rupress.org/jem/article/...
0
5
2
reposted by
Daphne Superville
Cancer Cell
14 days ago
Lymph node colonization induces tissue remodeling via immunosuppressive fibroblast-myeloid cell niches supporting metastatic tolerance
loading . . .
Lymph node colonization induces tissue remodeling via immunosuppressive fibroblast-myeloid cell niches supporting metastatic tolerance
Haist et al. demonstrate that lymph node (LN) colonization induces systems-wide LN remodeling in patients with head-and-neck cancer using multiplex imaging, spatial transcriptomics, and a melanoma model of LN metastasis. The authors identify spatially organized immunomodulatory myeloid/CAF niches as key features of metastatic tolerance that associate with T cell dysfunction and Treg activation beyond the tumor-colonized LN.
http://dlvr.it/TRRny1
0
3
2
reposted by
Daphne Superville
Cell Press
27 days ago
Lactation supports babies' immune health and reduces the risk of breast cancer for the mother.
spkl.io/63327Avl8f
Abigail Jaquish & Deepshika Ramanan
@cp-trendsimmuno.bsky.social
0
11
2
reposted by
Daphne Superville
Waggoner Lab
22 days ago
A glucocorticoid–FAS axis controls immune evasion during metastatic seeding
@nature.com
@danafarber.bsky.social
@harvardmed.bsky.social
@judithagudo.bsky.social
www.nature.com/articles/d41...
www.nature.com/articles/s41...
1
14
3
reposted by
Daphne Superville
Waggoner Lab
26 days ago
@biorxivpreprint.bsky.social
PTPN1/2 inhibits alveolar macrophage-mediated control of lung metastasis
www.biorxiv.org/content/10.6...
0
2
1
reposted by
Daphne Superville
Barbara Marte
28 days ago
new out in Nature
www.nature.com/articles/s41...
loading . . .
A disease model resource reveals core principles of tissue-specific cancer evolution - Nature
The Mouse Cancer Cell line Atlas (MCCA) provides major advances towards a mechanistic understanding of cancer genomes.
https://www.nature.com/articles/s41586-026-10187-2
0
14
8
reposted by
Daphne Superville
Waggoner Lab
about 1 month ago
Automated discernment of prognostic spatial features of
#TNBC
specific to cell interactions at the tumor border or metastatic site
@natcancer.nature.com
@noahgreenwald.bsky.social
@joleneranek.bsky.social
www.nature.com/articles/s43...
www.nature.com/articles/s43...
www.nature.com/articles/s43...
0
5
5
reposted by
Daphne Superville
Journal of Experimental Medicine
about 1 month ago
Insights: Frosio and Ostuni
@unisr.bsky.social
discuss new study by Gorin et al. (
rupress.org/jem/article/...
) which reveals an unexpected mechanism by which IFN-γ sustains trained immune states through prolonged signaling driven by cytokine retention at the cell surface.
rupress.org/jem/article/...
0
8
3
reposted by
Daphne Superville
Waggoner Lab
about 1 month ago
Modeling the evolutionary dynamics of clonal hematopoiesis
@natgenet.nature.com
@moffittnews.bsky.social
www.nature.com/articles/s41...
0
9
3
reposted by
Daphne Superville
Gladstone Institutes
about 1 month ago
🚨 NEW 🚨 "Systemic hypoxia suppresses solid tumor growth"
@ayushmidha.bsky.social
@genophoria.bsky.social
@ishahjain.bsky.social
@arcinstitute.bsky.social
@ucsfhealth.bsky.social
https://bit.ly/4arkFX8
loading . . .
Systemic hypoxia suppresses solid tumor growth
Local hypoxia is a hallmark of solid tumors and a negative prognostic factor in the progression and treatment of cancer. Here, we showed that systemic hypoxia, in contrast to localized tumor hypoxia, decreases tumor growth in vivo across multiple cancer...
https://bit.ly/4arkFX8
0
5
2
reposted by
Daphne Superville
Simon Cleary
about 1 month ago
Cool to see data backing up an anecdote I have been told - that short (1 hour) formaldehyde fixation can be better than longer (6 hours+) fixation for staining some antigens:
add a skeleton here at some point
0
8
1
reposted by
Daphne Superville
Nature Reviews Immunology
about 1 month ago
Intracellular bacteria in cancer cells promote immunosuppression in the metastatic niche
loading . . .
Intracellular bacteria in cancer cells promote immunosuppression in the metastatic niche
Nature Reviews Immunology, Published online: 12 February 2026; doi:10.1038/s41577-026-01279-1Intracellular bacteria in cancer cells promote the recruitment of neutrophils and their polarization towards an immunosuppressive phenotype via a cGAS-STING-dependent pathway.
http://dlvr.it/TQwXhY
0
1
1
reposted by
Daphne Superville
Immunity
about 1 month ago
loading . . .
A type I interferon-mitochondrial axis regulates efferocytosis and interferon-stimulated gene induction in macrophages
Cytosolic nucleic acid sensors contribute to pathogenic and autoinflammatory inflammation; however, little is known about the metabolic adaptations that they induce. Dunphy et al. find that these pathways induce type I interferon-dependent metabolic changes in macrophages, characterized by a decrease in mitochondrial membrane potential and increased mitochondrial fission, promoting efferocytosis, while restraining ISG induction to promote the resolution of inflammation.
http://dlvr.it/TQwLkH
0
2
1
reposted by
Daphne Superville
Waggoner Lab
about 1 month ago
Matrix-bound nanovesicles elicit epigenetic changes in myeloid cells, modulating their response to future inflammatory events
www.science.org/doi/10.1126/...
0
2
2
reposted by
Daphne Superville
Waggoner Lab
about 1 month ago
Metabolic control of innate immune activation in TET2-mutant clonal hematopoiesis
@cp-cellchembiol.bsky.social
@danafarber.bsky.social
www.cell.com/cell-chemica...
0
1
1
reposted by
Daphne Superville
Waggoner Lab
about 1 month ago
IFN-γ-induced trained immunity enhances killing of priority pathogens in healthy and genetically vulnerable individuals
@insight.jci.org
@tcddublin.bsky.social
insight.jci.org/articles/vie...
1
2
1
reposted by
Daphne Superville
Cell - a Cell Press journal
about 1 month ago
Now online! CLIM-TIME identifies metastatic microenvironment modulators for T cell therapy response
loading . . .
CLIM-TIME identifies metastatic microenvironment modulators for T cell therapy response
CLIM-TIME provides a high-throughput perturbation-mapping platform that links tumor suppressor gene loss to spatially defined metastatic niches and immune responses, identifying LOXL2 as a key modulator of suppressive metastatic environments. Inhibition of LOXL2 restores T cell infiltration into tumors and improves the efficacy of therapy.
http://dlvr.it/TQvDhV
0
2
2
reposted by
Daphne Superville
Christian Frezza
about 1 month ago
Chrysanthi Moschandrea and I have developed a new conceptual framework for understanding the role of metabolism in cancer, which we term metabolic permissiveness. We are eager to hear your thoughts on this topic.
genesdev.cshlp.org/content/earl...
loading . . .
Metabolic permissiveness: how tissue context shapes cancer
A biweekly scientific journal publishing high-quality research in molecular biology and genetics, cancer biology, biochemistry, and related fields
https://genesdev.cshlp.org/content/early/2026/02/09/gad.353516.125
0
23
9
reposted by
Daphne Superville
bioRxiv Cancer Bio
about 1 month ago
Targeting Myc activates a tissue-specific tumour resolution programme
https://www.biorxiv.org/content/10.64898/2026.02.06.704498v1
0
0
1
reposted by
Daphne Superville
Waggoner Lab
about 1 month ago
Two doses of Recombinant zoster vaccine reduces dementia risk 51% lower risk of dementia (in females > males) even accounting for healthy vacinee bias versus Tdap
@natcomms.nature.com
www.nature.com/articles/s41...
0
16
9
reposted by
Daphne Superville
bioRxiv Immunology
about 2 months ago
S1PR1 signaling biases neutrophils toward long-lived low-inflammatory functional states
https://www.biorxiv.org/content/10.64898/2026.02.05.703783v1
0
0
2
reposted by
Daphne Superville
Andrei Goga
about 2 months ago
Some of the latest work from our lab from outstanding scientist Sensen Lin
@ctbatucsf.bsky.social
@ucsfcancer.bsky.social
We find MYC- driven
#livercancer
are dependent on methionine metabolism. This includes a dependence on the ribosomal rRNA methyltransferase NOP2 that is a MYC target. 🧪
add a skeleton here at some point
0
7
3
reposted by
Daphne Superville
Proceedings of the National Academy of Sciences
about 2 months ago
Red blood cells typically don’t move independently, but 1% of those infected by the protozoan parasite Babesia microti show clear directional movement, possibly allowing the parasite to move through the blood and infect new red blood cells. In PNAS:
https://ow.ly/L96h50Y9uTK
0
6
4
reposted by
Daphne Superville
Cell - a Cell Press journal
about 2 months ago
Now online! Sensory neurons drive immune exclusion by stimulating a dense extracellular matrix in the breast cancer tumor microenvironment
loading . . .
Sensory neurons drive immune exclusion by stimulating a dense extracellular matrix in the breast cancer tumor microenvironment
In the triple-negative breast cancer ecosystem, sensory neurons activate cancer-associated fibroblasts to secrete collagen, thus stimulating a dense extracellular matrix that drives immune exclusion.
http://dlvr.it/TQnVYP
0
3
1
reposted by
Daphne Superville
Waggoner Lab
about 2 months ago
In a preclinical breast cancer metastasis model, the same bacteria strain, when present intracellularly versus extracellularly, exerts opposing effects on tumor immunity by inducing divergent neutrophil states
@cellcellpress.bsky.social
www.cell.com/cell/fulltex...
1
2
2
reposted by
Daphne Superville
Quaid Morris
about 2 months ago
In a new paper, we introduce Metient, a new method to reconstruct the migration history of metastatic clones, and learn cancer-type specific patterns of metastatic spread, from bulk or single-cell sequencing data.
www.nature.com/articles/s41...
loading . . .
Inferring cancer type-specific patterns of metastatic spread using Metient - Nature Methods
Metient is a statistical framework that infers patterns of metastatic spread and reconstructs cancer migration histories.
https://www.nature.com/articles/s41592-025-02924-8
3
29
14
reposted by
Daphne Superville
Waggoner Lab
about 2 months ago
Metastasis gets a little help from immune cell mitochondria
@cp-cellmetabolism.bsky.social
www.cell.com/cell-metabol...
www.cell.com/cell-metabol...
0
2
1
reposted by
Daphne Superville
bioRxiv Cancer Bio
about 2 months ago
Single-cell profiling of synchronous multi-organ metastasis reveals a systemic CD74+ lipid-associated macrophage niche driving polymetastatic breast cancer
https://www.biorxiv.org/content/10.64898/2026.01.31.701004v1
0
0
2
reposted by
Daphne Superville
bioRxiv Cancer Bio
about 2 months ago
Methionine metabolism and the NOP2 methyltransferase are essential for MYC-Driven liver tumorigenesis.
https://www.biorxiv.org/content/10.64898/2026.01.28.702329v1
0
1
3
reposted by
Daphne Superville
Caleb Lareau
about 2 months ago
Today in
@nature.com
, we describe how discarded reads in biobank-scale WGS can help resolve the genetic predictors and consequences of Epstein-Barr Virus (EBV) infection. Wonderful working with
@ryandhindsa.bsky.social
@sherrynyeo.bsky.social
@erinmayc.bsky.social
www.nature.com/articles/s41...
loading . . .
Population-scale sequencing resolves determinants of persistent EBV DNA - Nature
Population-scale WGS reveals genetic determinants of persistent EBV DNA, linking immune regulation—especially antigen processing and MHC class II variation—to EBV persistence and heterogeneous di...
https://www.nature.com/articles/s41586-025-10020-2#citeas
4
76
34
reposted by
Daphne Superville
Martin Turner
about 2 months ago
Just out
@natrevimmunol.nature.com
RNA-binding proteins and ribonucleoproteins as determinants of immunity
www.nature.com/articles/s41...
gives our perspective on this growing area of research. Special thanks to the editor Alexandra, for streamlining the manuscript.
loading . . .
RNA-binding proteins and ribonucleoproteins as determinants of immunity - Nature Reviews Immunology
RNA-binding proteins (RBPs) considerably expand the information content of the genome and can determine the lifespan, localization and function of RNA, thereby controlling when, where and how much pro...
https://www.nature.com/articles/s41577-025-01254-2
1
39
22
reposted by
Daphne Superville
Nicolas Robine 🇪🇺🇫🇷🇺🇸
3 months ago
Transcriptomic Plasticity is a Hallmark of Metastatic Pancreatic Cancer, by Christine Iacobuzio-Donahue,
@danapeer.bsky.social
et al.
pubmed.ncbi.nlm.nih.gov/41379552/
introduces a new single-cell method named PICASSO: Phylogenetic Inference of CNA in Single-cell RNA [...]
github.com/dpeerlab/pic...
loading . . .
Transcriptomic Plasticity is a Hallmark of Metastatic Pancreatic Cancer - PubMed
Metastasis is the leading cause of cancer deaths. To develop strategies for intercepting metastatic progression, a better understanding of how tumor cells adapt to vastly different organ contexts is needed. To investigate this question, a single-cell transcriptomic atlas of primary tumor and diverse …
https://pubmed.ncbi.nlm.nih.gov/41379552/
0
3
3
reposted by
Daphne Superville
BrownLab @Mt.Sinai
2 months ago
I am thrilled to announce that our latest paper is out now in
@cp-cancercell.bsky.social
! 1/n
www.sciencedirect.com/science/arti...
loading . . .
Armored macrophage-targeted CAR-T cells reset and reprogram the tumor microenvironment and control metastatic cancer growth
Tumor-associated macrophages (TAMs), which commonly express FOLR2 or TREM2, are enriched in solid tumors and keep the tumor microenvironment (TME) imm…
https://www.sciencedirect.com/science/article/pii/S1535610825005550?dgcid=author
1
17
8
reposted by
Daphne Superville
The Lund Lab
2 months ago
Sharing our latest by Filio Karakousi online today in
@cp-cancercell.bsky.social
!
authors.elsevier.com/a/1mUU45TA51...
We demonstrate that cytotoxic immune responses metabolically program the lymphatic vasculature to restrain regional metastasis and promote immunity!
1
11
4
reposted by
Daphne Superville
Barbara Marte
2 months ago
new out in Nature
www.nature.com/articles/s41...
loading . . .
Temporal tissue dynamics from a spatial snapshot - Nature
One-shot tissue dynamics reconstruction can infer changes in tissue composition over time, from single-time-point spatial proteomics of human cancers.
https://www.nature.com/articles/s41586-025-09876-1
0
3
2
reposted by
Daphne Superville
Jacky Goetz
2 months ago
💡 Have you ever wondered how
#circulating
#tumor
cells squeeze through narrow
#capillaries
during hashtag#metastasis ? 💥 We did, check out our latest publication just out
#NatureMaterials
:
rdcu.be/eZHxJ
1
38
13
reposted by
Daphne Superville
Cancer Cell
2 months ago
When blood mutations turn beneficial
loading . . .
When blood mutations turn beneficial
Clonal hematopoiesis (CH), an expansion of hematopoietic clones harboring somatic mutations, is common in patients with solid tumors and associates with poor outcomes. In this issue of Cancer Cell, a study shows that, in response to immunotherapy, TET2-mutant CH enhances macrophage antigen presentation and CD8⁺ T cell activation, thereby improving therapeutic efficacy.
http://dlvr.it/TQRb1C
0
1
1
reposted by
Daphne Superville
Ivan Zanoni
2 months ago
#WeekendRead
!
#SmartTumor
!
#SharingIsCaring
!
#InterferonFriendOrFoe
?! Lot in this
@cp-cellmetabolism.bsky.social
paper from Okwan-Duodu &co showing that tumor cells steal
#mitochondria
from immune cells to impair their activity & to produce immune suppressive type I
#IFNs
via cGAS-STING!
loading . . .
Mitochondrial transfer from immune to tumor cells enables lymph node metastasis
Although the immune system is a significant barrier to tumor growth and spread, established tumors evade immune attack and frequently colonize immune …
https://www.sciencedirect.com/science/article/abs/pii/S1550413125005455?via%3Dihub
0
8
2
reposted by
Daphne Superville
Waggoner Lab
2 months ago
Obesity rewires nucleotide metabolism in immune cells, making inflammatory responses via NLRP3 inflammasome much easier to trigger
www.science.org/doi/10.1126/...
@science.org
@zhenyuzhong.bsky.social
@utswim.bsky.social
0
19
8
reposted by
Daphne Superville
Di Jiang
2 months ago
🧬🔬@science.org A genetically encoded device for
#transcriptome
storage in mammalian cells | Science
www.science.org/doi/10.1126/...
@broadinstitute.org
loading . . .
A genetically encoded device for transcriptome storage in mammalian cells
Understanding how cells make decisions over time requires the ability to link past molecular states to future phenotypic outcomes. We present TimeVault, a genetically encoded system that records and s...
https://www.science.org/doi/10.1126/science.adz9353
1
55
28
reposted by
Daphne Superville
Cell Reports Medicine
3 months ago
Online now: Mutational landscape of normal breast tissues adjacent to invasive breast cancer
loading . . .
Mutational landscape of normal breast tissues adjacent to invasive breast cancer
Suwalska et al. show that cancer-adjacent normal breast tissues share genomic alterations with cancer, and many changes in cancer-relevant genes arise from specific combinations of germline polymorphisms. This supports gradual mutation-driven malignant transformation of normal cells and suggests context-dependent co-oncogenic function for common and rare germline polymorphisms.
http://dlvr.it/TQFxrz
0
1
1
reposted by
Daphne Superville
Barbara Marte
3 months ago
new out in Nature
www.nature.com/articles/s41...
loading . . .
Nutrient requirements of organ-specific metastasis in breast cancer - Nature
How the complex interplay between multiple nutrients within the microenvironment dictates potential sites of metastatic cancer growth is explored.
https://www.nature.com/articles/s41586-025-09898-9
0
20
10
reposted by
Daphne Superville
Arjun Raj
3 months ago
Blog post: Just quit Quitting projects in science is hard, but we should be doing a lot more of it.
open.substack.com/pub/arjunraj...
loading . . .
Just quit
Quitting projects in science is hard, but we should be doing a lot more of it.
https://open.substack.com/pub/arjunrajlab/p/just-quit?r=37ev25&utm_medium=ios
12
186
64
Load more
feeds!
log in