Laura Greenstreet
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View article: Single-Cell Transcriptomics Reveals Evolutionary Reconfiguration of Embryonic Cell Fate Specification in the Sea Urchin <i>Heliocidaris erythrogramma</i>
Single-Cell Transcriptomics Reveals Evolutionary Reconfiguration of Embryonic Cell Fate Specification in the Sea Urchin <i>Heliocidaris erythrogramma</i> Open
Altered regulatory interactions during development likely underlie a large fraction of phenotypic diversity within and between species, yet identifying specific evolutionary changes remains challenging. Analysis of single-cell developmenta…
View article: AiSciVision: A Framework for Specializing Large Multimodal Models in Scientific Image Classification
AiSciVision: A Framework for Specializing Large Multimodal Models in Scientific Image Classification Open
Trust and interpretability are crucial for the use of Artificial Intelligence (AI) in scientific research, but current models often operate as black boxes offering limited transparency and justifications for their outputs. We introduce AiS…
View article: Single-cell transcriptomics reveals evolutionary reconfiguration of embryonic cell fate specification in the sea urchin<i>Heliocidaris erythrogramma</i>
Single-cell transcriptomics reveals evolutionary reconfiguration of embryonic cell fate specification in the sea urchin<i>Heliocidaris erythrogramma</i> Open
Altered regulatory interactions during development likely underlie a large fraction of phenotypic diversity within and between species, yet identifying specific evolutionary changes remains challenging. Analysis of single-cell developmenta…
View article: Time- and lineage-resolved transcriptional profiling uncovers gene expression programs and clonal relationships that underlie human T lineage specification
Time- and lineage-resolved transcriptional profiling uncovers gene expression programs and clonal relationships that underlie human T lineage specification Open
T cells develop from multi-potent hematopoietic progenitors in the thymus and provide adaptive protection against pathogens and cancer. However, the emergence of human T cell-competent blood progenitors, and their subsequent specification …
View article: Brassinosteroid gene regulatory networks at cellular resolution in the <i>Arabidopsis</i> root
Brassinosteroid gene regulatory networks at cellular resolution in the <i>Arabidopsis</i> root Open
Brassinosteroids are plant steroid hormones that regulate diverse processes, such as cell division and cell elongation, through gene regulatory networks that vary in space and time. By using time series single-cell RNA sequencing to profil…
View article: Brassinosteroid gene regulatory networks at cellular resolution
Brassinosteroid gene regulatory networks at cellular resolution Open
Brassinosteroids (BRs) are plant steroid hormones that regulate diverse processes such as cell division and cell elongation. BRs control thousands of genes through gene regulatory networks that vary in space and time. By using time-series …
View article: Data generated from: Functional connectivity of the world's protected areas
Data generated from: Functional connectivity of the world's protected areas Open
Here, we provide the two primary global connectivity datasets generated in the study titled "Functional connectivity of the world's protected areas", including the protected area isolation (PAI) metric for all included protected areas (i.e…
View article: Data generated from: Functional connectivity of the world's protected areas
Data generated from: Functional connectivity of the world's protected areas Open
Here, we provide the two primary global connectivity datasets generated in the study titled "Functional connectivity of the world's protected areas", including the protected area isolation (PAI) metric for all included protected areas (i.e…
View article: The DNA-based global positioning system—a theoretical framework for large-scale spatial genomics
The DNA-based global positioning system—a theoretical framework for large-scale spatial genomics Open
We present GPS-seq, a theoretical framework that enables massively scalable, optics-free spatial transcriptomics. GPS-seq combines data from high-throughput sequencing with manifold learning to obtain the spatial transcriptomic landscape o…
View article: Efficient and Optimal Fixed-Time Regret with Two Experts
Efficient and Optimal Fixed-Time Regret with Two Experts Open
Prediction with expert advice is a foundational problem in online learning. In instances with $T$ rounds and $n$ experts, the classical Multiplicative Weights Update method suffers at most $\sqrt{(T/2)\ln n}$ regret when $T$ is known befor…
View article: A single-cell Arabidopsis root atlas reveals developmental trajectories in wild-type and cell identity mutants
A single-cell Arabidopsis root atlas reveals developmental trajectories in wild-type and cell identity mutants Open
In all multicellular organisms, transcriptional networks orchestrate organ development. The Arabidopsis root, with its simple structure and indeterminate growth, is an ideal model for investigating the spatiotemporal transcriptional signat…
View article: Optimal transport analysis reveals trajectories in steady-state systems
Optimal transport analysis reveals trajectories in steady-state systems Open
Understanding how cells change their identity and behaviour in living systems is an important question in many fields of biology. The problem of inferring cell trajectories from single-cell measurements has been a major topic in the single…
View article: Developmental single-cell transcriptomics in the <i>Lytechinus variegatus</i> sea urchin embryo
Developmental single-cell transcriptomics in the <i>Lytechinus variegatus</i> sea urchin embryo Open
Using scRNA-seq coupled with computational approaches, we studied transcriptional changes in cell states of sea urchin embryos during development to the larval stage. Eighteen closely spaced time points were taken during the first 24 h of …
View article: Hematopoiesis at single cell resolution spanning human development and maturation
Hematopoiesis at single cell resolution spanning human development and maturation Open
Hematopoiesis is a process of constitutive regeneration whereby hematopoietic stem and progenitor cells (HSPCs) replenish mature blood cells. During maturation and aging, HSPCs shift their output to support the demands of prenatal developm…
View article: Functional Connectivity of the World’s Protected Areas
Functional Connectivity of the World’s Protected Areas Open
Rapid environmental change threatens to isolate the world’s wildlife populations and intensify biodiversity loss. Global policies have called for expanding and connecting the world’s protected areas (PAs) to curtail the crisis, yet how wel…
View article: Optimal transport analysis reveals trajectories in steady-state systems
Optimal transport analysis reveals trajectories in steady-state systems Open
Understanding how cells change their identity and behaviour in living systems is an important question in many fields of biology. The problem of inferring cell trajectories from single-cell measurements has been a major topic in the single…
View article: Developmental Single-cell transcriptomics in the<i>Lytechinus variegatus</i>Sea Urchin Embryo
Developmental Single-cell transcriptomics in the<i>Lytechinus variegatus</i>Sea Urchin Embryo Open
Here we employed scRNA-seq coupled with computational approaches to examine molecular changes in cells during specification and differentiation. We examined the first 24 hours of development of the sea urchin Lytechinus variegatus ( Lv ) w…