Systems biology of cancer metastasis

Y Suhail, MP Cain, K Vanaja, PA Kurywchak… - Cell systems, 2019 - cell.com
Cancer metastasis is no longer viewed as a linear cascade of events but rather as a series
of concurrent, partially overlapping processes, as successfully metastasizing cells assume …

A community-based transcriptomics classification and nomenclature of neocortical cell types

R Yuste, M Hawrylycz, N Aalling, A Aguilar-Valles… - Nature …, 2020 - nature.com
To understand the function of cortical circuits, it is necessary to catalog their cellular
diversity. Past attempts to do so using anatomical, physiological or molecular features of …

Massively multiplex chemical transcriptomics at single-cell resolution

SR Srivatsan, JL McFaline-Figueroa, V Ramani… - Science, 2020 - science.org
High-throughput chemical screens typically use coarse assays such as cell survival, limiting
what can be learned about mechanisms of action, off-target effects, and heterogeneous …

Connecting omics signatures and revealing biological mechanisms with iLINCS

M Pilarczyk, M Fazel-Najafabadi, M Kouril… - Nature …, 2022 - nature.com
There are only a few platforms that integrate multiple omics data types, bioinformatics tools,
and interfaces for integrative analyses and visualization that do not require programming …

Generation and persistence of human tissue-resident memory T cells in lung transplantation

ME Snyder, MO Finlayson, TJ Connors, P Dogra… - Science …, 2019 - science.org
Tissue-resident memory T cells (TRM) maintain immunity in diverse sites as determined in
mouse models, whereas their establishment and role in human tissues have been difficult to …

Multiplexed single-cell transcriptional response profiling to define cancer vulnerabilities and therapeutic mechanism of action

JM McFarland, BR Paolella, A Warren… - Nature …, 2020 - nature.com
Assays to study cancer cell responses to pharmacologic or genetic perturbations are
typically restricted to using simple phenotypic readouts such as proliferation rate. Information …

Tumor-selective activity of RAS-GTP inhibition in pancreatic cancer

UN Wasko, J Jiang, TC Dalton, A Curiel-Garcia… - Nature, 2024 - nature.com
Broad-spectrum RAS inhibition holds the potential to benefit roughly a quarter of human
cancer patients whose tumors are driven by RAS mutations1, 2. RMC-7977 is a highly …

An overview of machine learning and big data for drug toxicity evaluation

AH Vo, TR Van Vleet, RR Gupta… - Chemical research in …, 2019 - ACS Publications
Drug toxicity evaluation is an essential process of drug development as it is reportedly
responsible for the attrition of approximately 30% of drug candidates. The rapid increase in …

DRUG-seq for miniaturized high-throughput transcriptome profiling in drug discovery

C Ye, DJ Ho, M Neri, C Yang, T Kulkarni… - Nature …, 2018 - nature.com
Here we report Digital RNA with pertUrbation of Genes (DRUG-seq), a high-throughput
platform for drug discovery. Pharmaceutical discovery relies on high-throughput screening …

The harsh microenvironment in early breast cancer selects for a Warburg phenotype

M Damaghi, J West… - Proceedings of the …, 2021 - National Acad Sciences
The harsh microenvironment of ductal carcinoma in situ (DCIS) exerts strong evolutionary
selection pressures on cancer cells. We hypothesize that the poor metabolic conditions near …