Eva K. Nichols

Dual-patterned pluripotent stem cells self-organize into a human embryo model with extended anterior-posterior patterning

The paper describes a method to generate human embryo-like structures by pre-patterning stem cells and mixing them, resulting in models with extended anterior-posterior organization and neural features.

Predicting cell cycle stage from 3D single-cell nuclear-stained images

CellCycleNet predicts cell cycle phases from 3D nuclear-stained images, outperforming SVM models and showing strong generalization across microscopes.

Capsule-Based Single-Cell Genome Sequencing

This paper introduces a semi-permeable capsule for single-cell genome sequencing, enabling uniform coverage and minimal cross-contamination for detecting genomic variants.

A single-cell transcriptional timelapse of mouse embryonic development, from gastrula to pup

12.4 million single-nucleus transcriptomes from 83 staged mouse embryos (E8 to P0) yield 190 cell types, a zygote-to-pup cell-type tree, and rapid postnatal transcriptional shifts.

Induction and in silico staging of human gastruloids with neural tube, segmented somites & advanced cell types

This study induces human gastruloids with embryo-like structures using retinoic acid and shows they match E9.5 mouse embryos in developmental stage through single-cell RNA-seq and computational staging.

Efficient and highly amplified imaging of nucleic acid targets in cellular and histopathological samples with pSABER

The paper introduces pSABER, a method for amplifying in situ hybridization signals in cellular and histopathological samples, achieving 25-fold amplification over conventional methods.

Multiplex genomic recording of enhancer and signal transduction activity in mammalian cells

This paper introduces ENGRAM, a method to genomically record enhancer and signal transduction activity in mammalian cells, demonstrating its ability to track multiple transcriptional reporters with high fidelity.

Fetal innate immunity contributes to the induction of atypical behaviors in a mouse model of maternal immune activation

This study shows that TLR3-mediated maternal immune activation induces specific behavioral changes in mouse offspring through fetal innate immunity.

Defective cell death of distinct microglial subsets contributes to ADHD-like behavior in mice

The paper shows that defective microglial pyroptosis in mice leads to ADHD-like behaviors, suggesting a link between microglial cell death and neurodevelopmental disorders.