Bioengineering tools for the production of pharmaceuticals: current perspective and future outlook

S Sarsaiya, J Shi, J Chen - Bioengineered, 2019 - Taylor & Francis
The bioengineering tools have significant advantages through less time-consuming and
utilized as a promising stage for the production of pharmaceutical bioproducts under the …

GO-function: deriving biologically relevant functions from statistically significant functions

J Wang, X Zhou, J Zhu, Y Gu, W Zhao… - Briefings in …, 2012 - academic.oup.com
In high-throughput studies of diseases, terms enriched with disease-related genes based on
Gene Ontology (GO) are routinely found. However, most current algorithms used to find …

Digitoxin affects metabolism, ROS production and proliferation in pancreatic cancer cells differently depending on the cell phenotype

H Lindholm, K Ejeskär, F Szekeres - International Journal of Molecular …, 2022 - mdpi.com
Digitoxin has repeatedly shown to have negative effects on cancer cell viability; however,
the actual mechanism is still unknown. In this study, we investigated the effects of digitoxin (1 …

Fast randomization of large genomic datasets while preserving alteration counts

A Gobbi, F Iorio, KJ Dawson, DC Wedge… - …, 2014 - academic.oup.com
Motivation: Studying combinatorial patterns in cancer genomic datasets has recently
emerged as a tool for identifying novel cancer driver networks. Approaches have been …

Cooperative genomic alteration network reveals molecular classification across 12 major cancer types

H Zhang, Y Deng, Y Zhang, Y Ping, H Zhao… - Nucleic acids …, 2017 - academic.oup.com
The accumulation of somatic genomic alterations that enables cells to gradually acquire
growth advantage contributes to tumor development. This has the important implication of …

Identifying cooperating cancer driver genes in individual patients through hypergraph random walk

T Zhang, SW Zhang, MY Xie, Y Li - Journal of Biomedical Informatics, 2024 - Elsevier
Objective Identifying cancer driver genes, especially rare or patient-specific cancer driver
genes, is a primary goal in cancer therapy. Although researchers have proposed some …

A landscape of synthetic viable interactions in cancer

Y Gu, R Wang, Y Han, W Zhou, Z Zhao… - Briefings in …, 2018 - academic.oup.com
Synthetic viability, which is defined as the combination of gene alterations that can rescue
the lethal effects of a single gene alteration, may represent a mechanism by which cancer …

Network analysis of genomic alteration profiles reveals co-altered functional modules and driver genes for glioblastoma

Y Gu, H Wang, Y Qin, Y Zhang, W Zhao, L Qi… - Molecular …, 2013 - pubs.rsc.org
The heterogeneity of genetic alterations in human cancer genomes presents a major
challenge to advancing our understanding of cancer mechanisms and identifying cancer …

ICan: an integrated co-alteration network to identify ovarian cancer-related genes

Y Zhou, Y Liu, K Li, R Zhang, F Qiu, N Zhao, Y Xu - PLoS One, 2015 - journals.plos.org
Background Over the last decade, an increasing number of integrative studies on cancer-
related genes have been published. Integrative analyses aim to overcome the limitation of a …

Comprehensive pan‐cancer analysis of the C2ORF40 expression: Infiltration associations and prognostic implications

Y Liu, J Hou, Y Zhao, J Zhou, S Bai… - The FASEB …, 2024 - Wiley Online Library
In recent years, C2ORF40 has been identified as a tumor suppressor gene with multiple
functions, including roles in cell proliferation, migration, and senescence. To explore the role …