Research Paper
MDPI Cancers: Synergistic Antitumor Activity of Talazoparib and Temozolomide in Malignant Rhabdoid Tumors (Kurmasheva, Lai, & Chen)
June 18, 2024
Elena Mironova, Sebastian Molinas, Vanessa Del Pozo, Abhik M. Bandyopadhyay, Zhao Lai, Dias Kurmashev, Eric L. Schneider, Daniel V. Santi, Yidong Chen, Raushan T. Kurmasheva Simple Summary Mutation of the SMARCB1 gene can cause one of the most aggressive and lethal cancers of early childhood and infancy, malignant rhabdoid tumor (MRT). Despite [...]Neoplasia: Aurkin-A, a TPX2-aurora a small molecule inhibitor, disrupts Alisertib-induced polyploidy in aggressive diffuse large B cell lymphoma. (Sung Lab)
June 18, 2024
Patrick J Conway 1, Bárbara De La Peña Avalos 2, Jonathan Dao 3, Sebastian Montagnino 4, Dmytro Kovalskyy 2, Eloise Dray 5, Daruka Mahadevan 6 Abstract Chemotherapy-induced polyploidy is a mechanism of inherited drug resistance resulting in an aggressive disease course in cancer patients. Alisertib, an Aurora Kinase A (AK-A) ATP site inhibitor, induces cell cycle disruption resulting in polyaneuploidy in Diffuse Large B Cell Lymphoma (DLBCL). Propidium [...]Cell Death & Disease: Impact of the thyroid hormone T3 and its nuclear receptor TRα1 on colon cancer stem cell phenotypes and response to chemotherapies (Penalva)
May 2, 2024
Maria Virginia Giolito, Serguei Bodoirat, Theo La Rosa, Mathieu Reslinger, Gabriela D. A. Guardia, Jana Mourtada, Leo Claret, Alain Joung, Pedro A. F. Galante, Luiz O. F. Penalva & Michelina Plateroti Abstract Colorectal cancers (CRCs) are highly heterogeneous and show a hierarchical organization, with cancer stem cells (CSCs) responsible for tumor development, maintenance, and drug resistance. [...]Current Protocols: Approaches for Mapping and Analysis of R-loops (Bishop Lab)
April 29, 2024
Pramiti Mukhopadhyay, Henry Miller, Aiola Stoja, Alexander J. R. Bishop Abstract R-loops are nucleic acid structures composed of a DNA: RNA hybrid with a displaced non-template single-stranded DNA. Current approaches to identify and map R-loop formation across the genome employ either an antibody targeted against R-loops (S9.6) or a catalytically inactivated form of RNase H1 (dRNH1), a nuclease [...]Patterns: Predicting drug response through tumor deconvolution by cancer cell lines (Chen Lab)
April 23, 2024
Yu-Ching Hsu 1 2 3 4, Yu-Chiao Chiu 5 6, Tzu-Pin Lu 3, Tzu-Hung Hsiao 7, Yidong Chen 4 8 9 Highlights •Scaden-CA is a deep-learning model for tumor deconvolution •Tumor deconvolution facilitates the use of a drug response prediction algorithm •The model explores drug response mechanisms via DNA mutations and/or expression changes The bigger picture Drug repurposing involves utilizing approved or investigational drugs beyond the scope of the original medical application. This approach offers [...]Journal of the American Chemical Society: ights into Molecular Diversity within the FUS/EWS/TAF15 Protein Family: Unraveling Phase Separation of the N-Terminal Low-Complexity Domain from RNA-Binding Protein EWS (Libich Lab)
April 8, 2024
Abstract The FET protein family, comprising FUS, EWS, and TAF15, plays crucial roles in mRNA maturation, transcriptional regulation, and DNA damage response. Clinically, they are linked to Ewing family tumors and neurodegenerative diseases such as amyotrophic lateral sclerosis. The fusion protein EWS::FLI1, the causative mutation of Ewing sarcoma, arises from a genomic translocation that fuses [...]Frontiers in Cell and Developmental Biology: Editorial: RNA-binding proteins in cancer: advances in translational research (Penalva)
March 27, 2024
Caterina Mancarella1* Nadine Bley2 Luiz O. F. Penalva3,4 RNA-binding proteins (RBPs) regulate RNA metabolism, processing, and translation by establishing highly dynamic interactions with hundreds of coding and non-coding target RNAs within ribonucleoprotein complexes (Van Nostrand et al., 2020). Alterations in RBP expression levels or function contribute to several pathological conditions, including cancer. Though underappreciated in the [...]Patterns: shinyDeepDR: A user-friendly R Shiny app for predicting anti-cancer drug response using deep learning (Chen lab, et al)
February 20, 2024
Li-Ju Wang 1, Michael Ning 1, Tapsya Nayak 2, Michael J. Kasper 1, Satdarshan P. Monga 3 4 5, Yufei Huang 5 6 7 8, Yidong Chen 2 9, Yu-Chiao Chiu 1 4 5 10 Show more Highlights shinyDeepDR is a web tool for predicting responses to 265 anti-cancer compounds It is applicable for researching both cancer cell lines and tumors Its interactive web interface facilitates result interpretation and investigation It identifies promising targets for an “undruggable” mutation in liver cancer The bigger picture Understanding how different [...]iScience: RNA helicase DDX3 regulates RAD51 localization and DNA damage repair in Ewing sarcoma (Bishop)
February 15, 2024
Matthew E. Randolph 1 2, Marwa Afifi 3, Aparna Gorthi 4, Rachel Weil 1, Breelyn A. Wilky 5, Joshua Weinreb 1, Paul Ciero 1 2, Natalie ter Hoeve 7, Paul J. van Diest 7, Venu Raman 5 6 8, Alexander J.R. Bishop 4, David M. Loeb 1 2 5 9 Highlights •Impaired DDX3 RNA helicase [...]Genes & Cancer: Roles of USP1 in Ewing sarcoma (Shiio Lab)
February 13, 2024
Panneerselvam Jayabal1, Xiuye Ma1 and Yuzuru Shiio1,2,3 ABSTRACT Ewing sarcoma is a cancer of bone and soft tissue in children and young adults that is driven by the EWS-ETS fusion transcription factor, most commonly EWS-FLI1. We previously reported that Ewing sarcoma harbors two populations of cells, the CD133high population displaying higher growth rate and the CD133low population displaying [...]