Functions of bromodomain-containing proteins and their roles in homeostasis and cancer

T Fujisawa, P Filippakopoulos - Nature reviews Molecular cell biology, 2017 - nature.com
Bromodomains (BRDs) are evolutionarily conserved protein–protein interaction modules
that are found in a wide range of proteins with diverse catalytic and scaffolding functions and …

Technological developments in lncRNA biology

S Jathar, V Kumar, J Srivastava, V Tripathi - Long Non Coding RNA …, 2017 - Springer
It is estimated that more than 90% of the mammalian genome is transcribed as non-coding
RNAs. Recent evidences have established that these non-coding transcripts are not junk or …

Accurate and efficient detection of gene fusions from RNA sequencing data

S Uhrig, J Ellermann, T Walther, P Burkhardt… - Genome …, 2021 - genome.cshlp.org
The identification of gene fusions from RNA sequencing data is a routine task in cancer
research and precision oncology. However, despite the availability of many computational …

Accuracy assessment of fusion transcript detection via read-mapping and de novo fusion transcript assembly-based methods

BJ Haas, A Dobin, B Li, N Stransky, N Pochet, A Regev - Genome biology, 2019 - Springer
Background Accurate fusion transcript detection is essential for comprehensive
characterization of cancer transcriptomes. Over the last decade, multiple bioinformatic tools …

PAX5-driven subtypes of B-progenitor acute lymphoblastic leukemia

Z Gu, ML Churchman, KG Roberts, I Moore, X Zhou… - Nature …, 2019 - nature.com
Recent genomic studies have identified chromosomal rearrangements defining new
subtypes of B-progenitor acute lymphoblastic leukemia (B-ALL), however many cases lack a …

The genetic basis and cell of origin of mixed phenotype acute leukaemia

TB Alexander, Z Gu, I Iacobucci, K Dickerson, JK Choi… - Nature, 2018 - nature.com
Mixed phenotype acute leukaemia (MPAL) is a high-risk subtype of leukaemia with myeloid
and lymphoid features, limited genetic characterization, and a lack of consensus regarding …

Identification of factors required for m6A mRNA methylation in Arabidopsis reveals a role for the conserved E3 ubiquitin ligase HAKAI

K Růžička, M Zhang, A Campilho, Z Bodi… - New …, 2017 - Wiley Online Library
Summary N6‐adenosine methylation (m6A) of mRNA is an essential process in most
eukaryotes, but its role and the status of factors accompanying this modification are still …

A comprehensive transcriptional portrait of human cancer cell lines

C Klijn, S Durinck, EW Stawiski, PM Haverty… - Nature …, 2015 - nature.com
Tumor-derived cell lines have served as vital models to advance our understanding of
oncogene function and therapeutic responses. Although substantial effort has been made to …

Multi-omics characterization of the 4T1 murine mammary gland tumor model

B Schrörs, S Boegel, C Albrecht, T Bukur… - Frontiers in …, 2020 - frontiersin.org
Background: Tumor models are critical for our understanding of cancer and the development
of cancer therapeutics. The 4T1 murine mammary cancer cell line is one of the most widely …

The landscape and therapeutic relevance of cancer-associated transcript fusions

K Yoshihara, Q Wang, W Torres-Garcia, S Zheng… - Oncogene, 2015 - nature.com
Transcript fusions as a result of chromosomal rearrangements have been a focus of
attention in cancer as they provide attractive therapeutic targets. To identify novel fusion …