Identification of cancer driver genes based on nucleotide context

F Dietlein, D Weghorn, A Taylor-Weiner, A Richters… - Nature …, 2020 - nature.com
Cancer genomes contain large numbers of somatic mutations but few of these mutations
drive tumor development. Current approaches either identify driver genes on the basis of …

Sweet melody or jazz? Transcription around DNA double-strand breaks

Q Long, Z Liu, M Gullerova - Frontiers in Molecular Biosciences, 2021 - frontiersin.org
Genomic integrity is continuously threatened by thousands of endogenous and exogenous
damaging factors. To preserve genome stability, cells developed comprehensive DNA …

Dissecting transcriptional amplification by MYC

Z Nie, C Guo, SK Das, CC Chow, E Batchelor… - Elife, 2020 - elifesciences.org
Supraphysiological MYC levels are oncogenic. Originally considered a typical transcription
factor recruited to E-boxes (CACGTG), another theory posits MYC a global amplifier …

Evolution of fibroblasts in the lung metastatic microenvironment is driven by stage-specific transcriptional plasticity

O Shani, Y Raz, L Monteran, Y Scharff, O Levi-Galibov… - Elife, 2021 - elifesciences.org
Mortality from breast cancer is almost exclusively a result of tumor metastasis, and lungs are
one of the main metastatic sites. Cancer-associated fibroblasts are prominent players in the …

NSD3S stabilizes MYC through hindering its interaction with FBXW7

V Gonzalez-Pecchi, AK Kwan, S Doyle… - Journal of Molecular …, 2020 - academic.oup.com
The MYC transcription factor plays a key role in cell growth control. Enhanced MYC protein
stability has been found to promote tumorigenesis. Thus, understanding how MYC stability is …

The pituitary tumour‐transforming gene 1/delta‐like homologue 1 pathway plays a key role in liver fibrogenesis

M Perramón, S Carvajal, V Reichenbach… - Liver …, 2022 - Wiley Online Library
Background and Aims PTTG1 is almost undetectable in adult livers but is highly expressed
in hepatocarcinoma. While little is known about its involvement in liver fibrosis, PTTG1 …

Integrative omics for interactomes

D Chakravorty, K Banerjee, S Saha - Synthetic Biology: Omics Tools and …, 2018 - Springer
Single-layer omics provide limited insight, whereas integrated multi-omics layers allow
understanding of their combined influence on the complex biological process. The …

Structural Comparison for Identifying Protein Hotspots Using PhiDsc Method

MHA Hoballa, C Eslahchi - Journal of Applied Biotechnology Reports, 2023 - biotechrep.ir
Introduction: Somatic mutations in cancer are caused by a complex interaction of many
starting and driving factors that work together to create a unique mutational landscape …

Discovery of cancer driver genes based on nucleotide context

F Dietlein, D Weghorn, A Taylor-Weiner, A Richters… - bioRxiv, 2018 - biorxiv.org
Many cancer genomes contain large numbers of somatic mutations, but few of these
mutations drive tumor development. Current approaches to identify cancer driver genes are …

PhiDsc: Protein functional mutation Identification by 3D Structure Comparison

MH Hoballa, C Eslahchi - bioRxiv, 2022 - biorxiv.org
Selective pressures that trigger cancer formation and progression shape the mutational
landscape of somatic mutations in cancer. Given the limits within which cells are regulated, a …