Julia Waldman

SlideCNA detects spatial copy number alterations from Slide-seq data to identify sub-clones in metastatic breast cancer.

This paper creates a spatial cell atlas of neuroblastoma, revealing tumor heterogeneity through multi-omics data and identifying spatial compartmentalization and signaling patterns.

This study identifies a rare progenitor cell population in the human airway that can differentiate into ionocytes or tuft cells, and shows cytokines can shift their lineage towards tuft cells in asthma and CF.

SCHAF generates spatially resolved single-cell transcriptomes from H&E histology images using vision transformers and adversarial learning, showing good agreement with ground-truth data.

The paper develops a method for single nucleus RNA-Seq from FFPE tissues and applies it to a human lung adenocarcinoma sample.

The paper introduces inCITE-seq, a method for simultaneous measurement of intranuclear proteins and gene expression in single cells, and demonstrates its application in analyzing neuronal activity in mouse brain tissue.

The paper identifies obesity-related TREM2high macrophages in diabetic mouse and human kidney through single-cell transcriptomics and cross-species comparison.

ExSeq enables multiplexed RNA mapping at nanoscale resolution by expanding biological specimens for in situ sequencing.

This study uses single-nucleus and spatial transcriptomics to analyze pancreatic cancer before and after neoadjuvant treatment, revealing changes in cell states and immune infiltration that may inform therapy.

The paper examines ACE2 expression in kidney cells in relation to RAAS blockers and age/sex, finding age-related differences and associations with drug use.

The paper develops a toolbox for scRNA-Seq and snRNA-Seq of fresh and frozen human tumors, testing it across eight tumor types and optimizing protocols for different tissue characteristics.

Across 1,176,683 airway and lung cells from 22 datasets, ACE2 rises with age, in males and in smokers' multiciliated cells, and is lowest in young children.

The paper uses single-cell RNA-Seq to assess kidney organoid reproducibility across iPSC lines and shows transplantation reduces off-target cells.

The paper introduces a method to multiplex single-nucleus RNA-seq using barcoded antibodies, reducing costs and enabling large-scale studies.

The paper was withdrawn due to the inclusion of confidential information about a third party.