Discovering and understanding oncogenic gene fusions through data intensive computational approaches

NS Latysheva, MM Babu - Nucleic acids research, 2016 - academic.oup.com
Although gene fusions have been recognized as important drivers of cancer for decades,
our understanding of the prevalence and function of gene fusions has been revolutionized …

Identifying fusion transcripts using next generation sequencing

S Kumar, SK Razzaq, AD Vo… - Wiley Interdisciplinary …, 2016 - Wiley Online Library
Fusion transcripts (ie, chimeric RNAs) resulting from gene fusions have been used
successfully for cancer diagnosis, prognosis, and therapeutic applications. In addition, many …

Comprehensive evaluation of fusion transcript detection algorithms and a meta-caller to combine top performing methods in paired-end RNA-seq data

S Liu, WH Tsai, Y Ding, R Chen, Z Fang… - Nucleic acids …, 2016 - academic.oup.com
Background: Fusion transcripts are formed by either fusion genes (DNA level) or trans-
splicing events (RNA level). They have been recognized as a promising tool for diagnosing …

Targeting genomic rearrangements in tumor cells through Cas9-mediated insertion of a suicide gene

ZH Chen, YP Yu, ZH Zuo, JB Nelson… - Nature …, 2017 - nature.com
Specifically targeting genomic rearrangements and mutations in tumor cells remains an
elusive goal in cancer therapy. Here, we used Cas9-based genome editing to introduce the …

Targetable gene fusions and aberrations in genitourinary oncology

F Pederzoli, M Bandini, L Marandino, SM Ali… - Nature Reviews …, 2020 - nature.com
Gene fusions result from either structural chromosomal rearrangement or aberrations
caused by splicing or transcriptional readthrough. The precise and distinctive presence of …

Identification of recurrent fusion genes across multiple cancer types

YP Yu, P Liu, J Nelson, RL Hamilton, R Bhargava… - Scientific reports, 2019 - nature.com
Chromosome changes are one of the hallmarks of human malignancies. Chromosomal
rearrangement is frequent in human cancers. One of the consequences of chromosomal …

Prediction of tumor location in prostate cancer tissue using a machine learning system on gene expression data

O Hamzeh, A Alkhateeb, J Zheng, S Kandalam… - BMC …, 2020 - Springer
Background Finding the tumor location in the prostate is an essential pathological step for
prostate cancer diagnosis and treatment. The location of the tumor–the laterality–can be …

A new era of prostate cancer precision medicine

A Malik, S Srinivasan, J Batra - Frontiers in Oncology, 2019 - frontiersin.org
Prostate cancer is the second most common male cancer affecting Western society. Despite
substantial advances in the exploration of prostate cancer biomarkers and treatment …

Roles of NOLC1 in cancers and viral infection

F Zhai, J Wang, X Luo, M Ye, X Jin - Journal of Cancer Research and …, 2023 - Springer
Background The nucleolus is considered the center of metabolic control and an important
organelle for the biogenesis of ribosomal RNA (rRNA). Nucleolar and coiled-body …

Man2a1–fer fusion gene is expressed by human liver and other tumor types and has oncogenic activity in mice

ZH Chen, PY Yan, J Tao, S Liu, G Tseng, M Nalesnik… - Gastroenterology, 2017 - Elsevier
Background & Aims Human tumors and liver cancer cell lines express the product of a fusion
between the first 13 exons in the mannosidase α class 2A member 1 gene (MAN2A1) and …