A comprehensive infrastructure for big data in cancer research: accelerating cancer research and precision medicine

IV Hinkson, TM Davidsen, JD Klemm… - Frontiers in cell and …, 2017 - frontiersin.org
Advancements in next-generation sequencing and other-omics technologies are
accelerating the detailed molecular characterization of individual patient tumors, and driving …

Assembling and validating bioinformatic pipelines for next-generation sequencing clinical assays

JA SoRelle, M Wachsmann… - Archives of pathology …, 2020 - meridian.allenpress.com
Context.—Clinical next-generation sequencing (NGS) is being rapidly adopted, but analysis
and interpretation of large data sets prompt new challenges for a clinical laboratory setting …

Improved detection of gene fusions by applying statistical methods reveals oncogenic RNA cancer drivers

R Dehghannasiri, DE Freeman… - Proceedings of the …, 2019 - National Acad Sciences
The extent to which gene fusions function as drivers of cancer remains a critical open
question. Current algorithms do not sufficiently identify false-positive fusions arising during …

Specific splice junction detection in single cells with SICILIAN

R Dehghannasiri, JE Olivieri, A Damljanovic… - Genome Biology, 2021 - Springer
Precise splice junction calls are currently unavailable in scRNA-seq pipelines such as the
10x Chromium platform but are critical for understanding single-cell biology. Here, we …

Visual detection of fusion genes by ligation-triggered isothermal exponential amplification: A point-of-care testing method for highly specific and sensitive quantitation …

H Wang, H Wang, Y Jia, R Sun, W Hong… - Analytical …, 2019 - ACS Publications
Fusion genes, playing a causal role in human tumorigenesis and developments, are
deemed as gold standard molecular biomarkers in cancer diagnosis, therapy, and …

A convergent malignant phenotype in B-cell acute lymphoblastic leukemia involving the splicing factor SRRM1

A Closa, M Reixachs-Solé, AC Fuentes-Fayos… - NAR …, 2022 - academic.oup.com
A significant proportion of infant B-cell acute lymphoblastic leukemia (B-ALL) patients
remains with a dismal prognosis due to yet undetermined mechanisms. We performed a …

One-step and highly sensitive quantification of fusion genes with isothermal amplification initiated by a fusion-site anchored stem-loop primer

H Wang, S Wang, H Wang, Y Liang, Z Li - Analyst, 2022 - pubs.rsc.org
As causative oncogenes and drug targets, fusion genes play critical roles in tumorigenesis,
development, and treatment and thus are regarded as tumor-specific molecular biomarkers …

Alignment free filtering for identifying fusions

X Yang, HJ Kim, W Pan, MH Larson, EM Scott… - US Patent …, 2022 - Google Patents
Cell free nucleic acids from a test sample obtained from an individual are analyzed to
identify possible fusion events. Cell free nucleic acids are sequenced and processed to …

Queryfuse is a sensitive algorithm for detection of gene-specific fusions

Y Tan - bioRxiv, 2020 - biorxiv.org
Recurrent chromosomal translocations, known as fusions, play important roles in
carcinogenesis. They can serve as valuable diagnostic and therapeutic targets. RNA-seq is …

[图书][B] Functional Nucleic Acid Based Biosensors for Food Safety Detection

Y Luo, Y Luo - 2018 - Springer
The burden of foodborne diseases is heavy, which comes from all age groups and
individuals in all regions. A person who is eating may be subject to microbial or chemical …