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 [...]

Nature Communications: Reconstitution of human PDAC using primary cells reveals oncogenic transcriptomic features at tumor onset (Chen, Zheng)

February 8, 2024

Yi Xu, Michael H. Nipper, Angel A. Dominguez, Zhenqing Ye, Naoki Akanuma, Kevin Lopez, Janice J. Deng, Destiny Arenas, Ava Sanchez, Francis E. Sharkey, Colin M. Court, Aatur D. Singhi, Huamin Wang, Martin E. Fernandez-Zapico, Lu-Zhe Sun, Siyuan Zheng, Yidong Chen, Jun Liu & Pei Wang Animal studies have demonstrated the ability of pancreatic acinar cells [...]

Cancers: The Versatile Attributes of MGMT: Its Repair Mechanism, Crosstalk with Other DNA Repair Pathways, and Its Role in Cancer (Sung Lab)

February 5, 2024

by  Qingming Fang Simple Summary This review offers a thorough examination of the potential role and structural properties of MGMT, the progression in targeting MGMT, and the interactions between MGMT and DNA repair pathways involved in processing DNA lesions. Abstract O6-methylguanine-DNA methyltransferase (MGMT or AGT) is a DNA repair protein with the capability to remove [...]

Genetic Counseling: Families’ experiences accessing care after genomic sequencing in the pediatric cancer context: “It’s just been a big juggle” (Tomlinson)

January 18, 2024

Blake Vuocolo, Amanda M. Gutierrez, Jill O. Robinson, Alva M. Recinos, Lauren R. Desrosiers, Mary A. Majumder, Juan Carlos Bernini, Jonathan Gill, Timothy Griffin, Gail E. Tomlinson, Kelly Vallance, Amy L. McGuire, D. Williams Parsons, Sharon E. Plon, Sarah Scollon Abstract Access to genomic sequencing (GS) and resulting recommendations have not been well described in pediatric oncology. GS results may provide a cancer predisposition syndrome (CPS) diagnosis that warrants [...]

Cell Reports: The FANCI/FANCD2 complex links DNA damage response to R-loop regulation through SRSF1-mediated mRNA export (Sung & Lab)

January 17, 2024

Anne Olazabal-Herrero 1 2, Boxue He 3 4, Youngho Kwon 3, Abhishek K. Gupta 2, Arijit Dutta 3, Yuxin Huang 3, Prajwal Boddu 2, Zhuobin Liang 5, Fengshan Liang 1 2, Yaqun Teng 6 7, Li Lan 6 7, Xiaoyong Chen 8, Huadong Pei 9, Manoj M. Pillai 2, Patrick Sung 3, Gary M. Kupfer 1 10 Show more Highlights RSF1 activates the FA pathway by binding and stimulating FANCD2 ubiquitination ANCD2 ubiquitination is crucial for the formation of NXF1-SRSF1 export complex ANCD2 monoubiquitination is critical for NXF1-mediated mRNA export RSF1 cancer mutants fail to bind FANCD2 and NXF1, leading to inefficient mRNA export Summary Fanconi anemia (FA) [...]

Scientific Reports: A CIC-related-epigenetic factors-based model associated with prediction, the tumor microenvironment and drug sensitivity in osteosarcoma (Kitagawa Lab)

January 16, 2024

Bin Yu, Chengkui Geng, Zhongxiong Wu, Zhongzi Zhang, Aili Zhang, Ze Yang, Jiazheng Huang, Ying Xiong, Huiqin Yang & Zhuoyuan Chen Abstract Osteosarcoma is generally considered a cold tumor and is characterized by epigenetic alterations. Although tumor cells are surrounded by many immune cells such as macrophages, T cells may be suppressed, be inactivated, or not [...]

Cell Reports: TREX2 deficiency suppresses spontaneous and genotoxin-associated mutagenesis (Vaseva Lab, Sung)

January 12, 2024

Teresa Marple 1 4 8, Mi Young Son 1 2 5 8, Xiaodong Cheng 1 6, Jun Ho Ko 1 7, Patrick Sung 2 3 4, Paul Hasty 1 3 5 9 Highlights The 3′-5′ exonuclease TREX2 causes spontaneous mutations in cells TREX2 causes mutations in cells exposed to a range of genotoxins TREX2 causes spontaneous mutations in MMR-deleted cells Deletion of TREX2 and MMR has a synthetic effect on DNA replication Summary TREX2, a 3′-5′ exonuclease, is a part of the DNA damage tolerance (DDT) [...]