D. E. Root

Generation of a biliary tract cancer cell line atlas reveals molecular subtypes and therapeutic targets

This study creates a biliary tract cancer cell line atlas using multi-omics data to identify molecular subtypes and therapeutic targets.

Cholesterol biosynthesis inhibition synergizes with AKT inhibitors in triple-negative breast cancer

This study identifies a synergistic effect between AKT inhibitors and pitavastatin in killing triple-negative breast cancer cells by targeting cholesterol trafficking.

Vps18 contributes to phagosome membrane integrity in Mycobacterium tuberculosis-infected macrophages.

This study identifies Vps18 as a host factor critical for maintaining phagosomal membrane integrity in Mtb-infected macrophages, showing increased phagosomal damage and reduced antibiotic efficacy in its absence.

EZH2 synergizes with BRD4-NUT to drive NUT carcinoma growth through silencing of key tumor suppressor genes

This study identifies EZH2 as a dependency in NUT carcinoma, showing that combining EZH2 and BET inhibitors synergistically blocks tumor growth and prolongs survival.

Translation of non-canonical open reading frames as a cancer cell survival mechanism in childhood medulloblastoma

The paper investigates non-canonical ORF translation in medulloblastoma, identifying ASNSD1-uORF as critical for cell survival through interactions with the prefoldin-like chaperone complex.

Germline variation contributes to false negatives in CRISPR-based experiments with varying burden across ancestries

The paper identifies ancestry-related biases in CRISPR experiments caused by germline variants, showing disproportionate effects in cell models from recent African descent.

Mapping the landscape of genetic dependencies in chordoma

This study identifies essential genes in chordoma using CRISPR screens, revealing new therapeutic targets like PTPN11 and confirming known dependencies such as TBXT.

Partial gene suppression improves identification of cancer vulnerabilities when CRISPR-Cas9 knockout is pan-lethal

This study compares CRISPR-Cas9 and RNAi screens to identify cancer vulnerabilities, finding that RNAi better detects pan-dependencies while CRISPR identifies more dependencies overall.

Targeting TRIP13 in Wilms Tumor with Nuclear Export Inhibitors

This study identifies XPO1 inhibition with selinexor as a potential therapy for favorable histology Wilms tumors, showing synergy with doxorubicin in preclinical models.

Pan-cancer organoid validation of tumor outlier chromosomal amplification events

The paper validates oncogenic chromosomal amplification events across multiple cancers using organoid models and functional assays.

Genome-wide CRISPR and small-molecule screens uncover targetable dependencies in ATRT

This study identifies targetable genetic dependencies in ATRT using CRISPR and small-molecule screens, revealing CDK4/6 inhibitors as potent therapeutic options.

Phosphate dysregulation via the XPR1:KIDINS220 protein complex is a therapeutic vulnerability in ovarian cancer

The paper identifies XPR1 and KIDINS220 as therapeutic targets in ovarian cancer by showing their role in phosphate dysregulation leading to cell death.

Non-canonical open reading frames encode functional proteins essential for cancer cell survival

The paper identifies non-canonical open reading frames (ORFs) that encode functional proteins essential for cancer cell survival, with one example, GREP1, showing preferential essentiality in breast cancer.

Acquired FGFR and FGF alterations confer resistance to estrogen receptor (ER) targeted therapy in ER+ metastatic breast cancer

This study identifies FGFR and FGF pathway alterations as acquired resistance mechanisms to ER-targeted therapy in ER+ metastatic breast cancer and suggests targeted inhibitors as potential treatments.

Extracting Biological Insights from the Project Achilles Genome-Scale CRISPR Screens in Cancer Cell Lines

The paper describes updates to the Project Achilles processing pipeline for CRISPR screens in cancer cell lines, including quality control improvements and dependency score calculations.

Agreement between two large pan-cancer CRISPR-Cas9 gene dependency datasets

This study compares two large pan-cancer CRISPR-Cas9 screens, finding high concordance in gene dependencies despite differences in protocols and reagents.

Renal medullary carcinomas depend upon SMARCB1 loss and are sensitive to proteasome inhibition

This study identifies SMARCB1 loss as critical for RMC survival and shows proteasome inhibition as a potential therapeutic strategy.