On the public citation graph

FusionCatcher – a tool for finding somatic fusion genes in paired-end RNA-sequencing data

https://doi.org/10.1101/011650
0 signed · 411 inferred · view as graph

Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.

Is this your work? Sign in with ORCID and put your name on the claims that are yours.
Claim with ORCID
Reference health. See whether every reference in this work resolves to a known work and none has been retracted — and get a dated CiteStamped badge you can embed.
See reference health

What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/9780471650126.dob0996openalex-snapshot
Mitelman Database (Chromosome Aberrations and Gene Fusions in Cancer)
inferredcites →https://doi.org/10.1007/978-3-319-19983-2_1openalex-snapshot
A Short History of Chromosome Rearrangements and Gene Fusions in Cancer
inferredcites →https://doi.org/10.1038/bjc.2013.802openalex-snapshot
FGFR2 amplification has prognostic significance in gastric cancer: results from a large international multicentre study
inferredcites →https://doi.org/10.1038/nmeth.1923openalex-snapshot
Fast gapped-read alignment with Bowtie 2
inferredcites →https://doi.org/10.1038/nrc1299openalex-snapshot
A census of human cancer genes
inferredcites →https://doi.org/10.1093/bioinformatics/btr265openalex-snapshot
FusionHunter: identifying fusion transcripts in cancer using paired-end RNA-seq
inferredcites →https://doi.org/10.1093/bioinformatics/btr467openalex-snapshot
ChimeraScan: a tool for identifying chimeric transcription in sequencing data
inferredcites →https://doi.org/10.1093/bioinformatics/bts635openalex-snapshot
STAR: ultrafast universal RNA-seq aligner
inferredcites →https://doi.org/10.1093/nar/gkr362openalex-snapshot
A novel bioinformatics pipeline for identification and characterization of fusion transcripts in breast cancer and normal cell lines
inferredcites →https://doi.org/10.1093/nar/gks1236openalex-snapshot
Ensembl 2013
inferredcites →https://doi.org/10.1101/gr.229202openalex-snapshot
BLAT —The BLAST -Like Alignment Tool
inferredcites →https://doi.org/10.1126/science.1249484openalex-snapshot
Detection of a Recurrent DNAJB1-PRKACA Chimeric Transcript in Fibrolamellar Hepatocellular Carcinoma
inferredcites →https://doi.org/10.1158/2159-8290.cd-13-0050openalex-snapshot
Identification of Targetable FGFR Gene Fusions in Diverse Cancers
inferredcites →https://doi.org/10.1186/1471-2164-15-824openalex-snapshot
Open-access synthetic spike-in mRNA-seq data for cancer gene fusions
inferredcites →https://doi.org/10.1186/1755-8794-4-11openalex-snapshot
Deep RNA sequencing analysis of readthrough gene fusions in human prostate adenocarcinoma and reference samples
inferredcites →https://doi.org/10.1186/gb-2009-10-3-r25openalex-snapshot
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
inferredcites →https://doi.org/10.1186/gb-2011-12-1-r6openalex-snapshot
Identification of fusion genes in breast cancer by paired-end RNA-sequencing
inferredcites →https://doi.org/10.1186/gb-2011-12-8-r72openalex-snapshot
TopHat-Fusion: an algorithm for discovery of novel fusion transcripts
inferredcites →https://doi.org/10.1186/gb-2013-14-2-r12openalex-snapshot
SOAPfuse: an algorithm for identifying fusion transcripts from paired-end RNA-Seq data
inferredcites →https://doi.org/10.1371/journal.pcbi.1001138openalex-snapshot
deFuse: An Algorithm for Gene Fusion Discovery in Tumor RNA-Seq Data
inferredcites →https://doi.org/10.1371/journal.pone.0013284openalex-snapshot
Expression of Conjoined Genes: Another Mechanism for Gene Regulation in Eukaryotes
inferredcites →https://doi.org/10.1371/journal.pone.0048745openalex-snapshot
Reanalysis of RNA-Sequencing Data Reveals Several Additional Fusion Genes with Multiple Isoforms
inferredcites →https://doi.org/10.6084/m9.figshare.1125933openalex-snapshot
Novel FGFR2 fusion gene in NCI-H716 colorectal cancer cell line
inferredcites →https://doi.org/10.6084/m9.figshare.856657openalex-snapshot
Fusion genes in SNU-16 stomach cancer cell lines
inferredcites →https://doi.org/10.6084/m9.figshare.856658openalex-snapshot
Fusion genes in KATOIII stomach cancer cell line
inferredcites →https://doi.org/10.6084/m9.figshare.856659openalex-snapshot
Fusion genes in U87MG glioblastoma-astrocytoma cell line
inferredcites →https://doi.org/10.6084/m9.figshare.856664openalex-snapshot
Fusion genes in HeLa cervical cancer cell lines

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/1878-0261.13057openalex-snapshot
Genomic analyses of high‐grade neuroendocrine gynecological malignancies reveal a unique mutational landscape and therapeutic vulnerabilities
inferred← citeshttps://doi.org/10.1002/1878-0261.13622openalex-snapshot
Transcriptome‐wide gene expression outlier analysis pinpoints therapeutic vulnerabilities in colorectal cancer
inferred← citeshttps://doi.org/10.1002/advs.202404510openalex-snapshot
Molecular Profiling Defines Three Subtypes of Synovial Sarcoma
inferred← citeshttps://doi.org/10.1002/cjp2.158openalex-snapshot
NTRK fusions in osteosarcoma are rare and non‐functional events
inferred← citeshttps://doi.org/10.1002/cpbi.39openalex-snapshot
Using the Seven Bridges Cancer Genomics Cloud to Access and Analyze Petabytes of Cancer Data
inferred← citeshttps://doi.org/10.1002/gcc.22392openalex-snapshot
Novel fusion genes and chimeric transcripts in ependymal tumors
inferred← citeshttps://doi.org/10.1002/gcc.22478openalex-snapshot
Soft tissue angiofibroma: Clinicopathologic, immunohistochemical and molecular analysis of 14 cases
inferred← citeshttps://doi.org/10.1002/gcc.22679openalex-snapshot
Genomic analysis reveals recurrent deletion of JAK‐STAT signaling inhibitors HNRNPK and SOCS1 in mycosis fungoides
inferred← citeshttps://doi.org/10.1002/gcc.22727openalex-snapshot
Frequent mutations of genes encoding vacuolar H+‐ATPase components in granular cell tumors
inferred← citeshttps://doi.org/10.1002/gcc.22832openalex-snapshot
Deep sequencing of myxoinflammatory fibroblastic sarcoma
inferred← citeshttps://doi.org/10.1002/gcc.22953openalex-snapshot
Novel morphologic findings in PLAG1‐rearranged soft tissue tumors
inferred← citeshttps://doi.org/10.1002/gcc.23077openalex-snapshot
Identification of a novel PHIP :: BRAF gene fusion in infantile fibrosarcoma
inferred← citeshttps://doi.org/10.1002/gcc.23176openalex-snapshot
Insertion of the CXXC domain of KMT2A into YAP1 : An unusual mechanism behind the formation of a chimeric oncogenic protein
inferred← citeshttps://doi.org/10.1002/gcc.23224openalex-snapshot
Identification of a novel SH3PXD2B :: FER fusion in a case of plexiform myofibroblastic tumor and review of the literature
inferred← citeshttps://doi.org/10.1002/gcc.23253openalex-snapshot
The Variable Genomic Landscape During Osteosarcoma Progression: Insights From a Longitudinal WGS Analysis
inferred← citeshttps://doi.org/10.1002/gcc.70028openalex-snapshot
Novel PDGFRB Gene Fusions in Two Cases of Infantile Myofibromatosis
inferred← citeshttps://doi.org/10.1002/gcc.70161openalex-snapshot
Pitfalls and Challenges in the Detection of ZNF384 Rearrangements by Fluorescence in Situ Hybridization
inferred← citeshttps://doi.org/10.1002/hem3.70195openalex-snapshot
Transcriptional profiling directs the classification of acute leukemias of ambiguous lineage into AML, B‐ALL, or T‐ALL
inferred← citeshttps://doi.org/10.1002/hem3.70366openalex-snapshot
IntegrateALL: An end‐to‐end RNA‐seq analysis pipeline for multilevel data extraction and interpretable subtype classification in B‐precursor ALL
inferred← citeshttps://doi.org/10.1002/hep4.2055openalex-snapshot
β‐catenin cancer–enhancing genomic regions axis is involved in the development of fibrolamellar hepatocellular carcinoma
inferred← citeshttps://doi.org/10.1002/ijc.32927openalex-snapshot
Analysis of fusion transcripts indicates widespread deregulation of snoRNAs and their host genes in breast cancer
inferred← citeshttps://doi.org/10.1002/path.4677openalex-snapshot
Transcriptome sequencing identifies ETV6–NTRK3 as a gene fusion involved in GIST
inferred← citeshttps://doi.org/10.1002/path.5071openalex-snapshot
Genetic analyses of undifferentiated small round cell sarcoma identifies a novel sarcoma subtype with a recurrent CRTC1‐SS18 gene fusion
inferred← citeshttps://doi.org/10.1002/path.5326openalex-snapshot
Undifferentiated pleomorphic sarcomas with PRDM10 fusions have a distinct gene expression profile
inferred← citeshttps://doi.org/10.1002/path.5779openalex-snapshot
NTRK oncogenic fusions are exclusively associated with the serrated neoplasia pathway in the colorectum and begin to occur in sessile serrated lesions
inferred← citeshttps://doi.org/10.1002/path.5872openalex-snapshot
Recurrent FOXK1 :: GRHL and GPS2 :: GRHL fusions in trichogerminoma
inferred← citeshttps://doi.org/10.1002/path.6219openalex-snapshot
Disruption of the TP53 locus in osteosarcoma leads to TP53 promoter gene fusions and restoration of parts of the TP53 signalling pathway
inferred← citeshttps://doi.org/10.1002/path.6272openalex-snapshot
RAF1 gene fusions are recurrent driver events in infantile fibrosarcoma‐like mesenchymal tumors
inferred← citeshttps://doi.org/10.1002/pbc.29926openalex-snapshot
Diverse mutations and structural variations contribute to Notch signaling deregulation in paediatric T‐cell lymphoblastic lymphoma
inferred← citeshttps://doi.org/10.1002/pros.23823openalex-snapshot
TMPRSS2‐ERG fusions linked to prostate cancer racial health disparities: A focus on Africa
inferred← citeshttps://doi.org/10.1002/wrna.1382openalex-snapshot
Identifying fusion transcripts using next generation sequencing
inferred← citeshttps://doi.org/10.1002/wrna.1427openalex-snapshot
Chimeric RNAs in cancer and normal physiology
inferred← citeshttps://doi.org/10.1007/978-1-0716-4276-4_7openalex-snapshot
Fusion Transcript Detection from Short-Read RNA-Seq
inferred← citeshttps://doi.org/10.1007/978-1-0716-4290-0_10openalex-snapshot
Architects and Partners: The Dual Roles of Non-coding RNAs in Gene Fusion Events
inferred← citeshttps://doi.org/10.1007/978-1-0716-5202-2_1openalex-snapshot
Integrative Chimeric RNA Prediction with FASfuse
inferred← citeshttps://doi.org/10.1007/978-1-4939-3204-7_13openalex-snapshot
Reproducible, Scalable Fusion Gene Detection from RNA-Seq
inferred← citeshttps://doi.org/10.1007/978-1-4939-3204-7_14openalex-snapshot
Transcriptome Sequencing for the Detection of Chimeric Transcripts
inferred← citeshttps://doi.org/10.1007/978-1-4939-9151-8_13openalex-snapshot
RNA Sequencing in B-Cell Lymphomas
inferred← citeshttps://doi.org/10.1007/978-1-4939-9904-0_5openalex-snapshot
Case Study: Systematic Detection and Prioritization of Gene Fusions in Cancer by RNA-Seq: A DIY Toolkit
inferred← citeshttps://doi.org/10.1007/978-3-031-15743-1_8openalex-snapshot
FusionFlow: An Integrated System Workflow for Gene Fusion Detection in Genomic Samples
inferred← citeshttps://doi.org/10.1007/978-3-031-55248-9_8openalex-snapshot
The Search for Cancer Drivers
inferred← citeshttps://doi.org/10.1007/978-3-031-82768-6_2openalex-snapshot
Identification of Chimeric RNAs: A Novel Machine Learning Perspective
inferred← citeshttps://doi.org/10.1007/978-3-319-64096-9_10openalex-snapshot
Gene Fusions
inferred← citeshttps://doi.org/10.1007/978-981-19-1953-4_6openalex-snapshot
Computational Tools and Databases for Fusion Transcripts: Therapeutic Targets in Cancer
inferred← citeshttps://doi.org/10.1007/s00109-021-02149-0openalex-snapshot
RNA-Seq for the detection of gene fusions in solid tumors: development and validation of the JAX FusionSeq™ 2.0 assay
inferred← citeshttps://doi.org/10.1007/s00262-026-04390-3openalex-snapshot
Identification and prioritisation of tumour antigen candidates from 79 glioblastoma transcriptomes
inferred← citeshttps://doi.org/10.1007/s00428-025-04175-6openalex-snapshot
YAP1::MAML2, YAP1::NUTM1, and RNF13::PAK2 rearrangements in trichoblastomas and adnexal tumors with panfollicular differentiation: expanding the spectrum of YAP1/PAK-fused skin adnexal tumors
inferred← citeshttps://doi.org/10.1007/s00432-019-03078-9openalex-snapshot
Transcriptome analysis reveals overlap in fusion genes in a phase I clinical cohort of TNBC and HGSOC patients treated with buparlisib and olaparib
inferred← citeshttps://doi.org/10.1007/s00438-018-1454-1openalex-snapshot
Co-fuse: a new class discovery analysis tool to identify and prioritize recurrent fusion genes from RNA-sequencing data
inferred← citeshttps://doi.org/10.1007/s10549-016-3876-yopenalex-snapshot
Recurrent and pathological gene fusions in breast cancer: current advances in genomic discovery and clinical implications
inferred← citeshttps://doi.org/10.1007/s11427-019-1609-6openalex-snapshot
Evidence of constraint in the 3D genome for trans-splicing in human cells
inferred← citeshttps://doi.org/10.1007/s13402-022-00758-6openalex-snapshot
Establishment of experimental salivary gland cancer models using organoid culture and patient-derived xenografting
inferred← citeshttps://doi.org/10.1007/s13402-026-01173-xopenalex-snapshot
Hippo signalling pathway mediates oncogenic properties of NAB2::STAT6 in solitary fibrous tumour
inferred← citeshttps://doi.org/10.1007/s13577-020-00418-7openalex-snapshot
BL1391: an established cell line from a human malignant peripheral nerve sheath tumor with unique genomic features
inferred← citeshttps://doi.org/10.1007/s13577-025-01318-4openalex-snapshot
Establishment and characterization of a novel cell line ICH-BCPALL-3 from B cell precursor acute lymphoblastic leukemia with TCF3::HLF
inferred← citeshttps://doi.org/10.1007/s40291-025-00779-5openalex-snapshot
Effective Utilization of a Customized Targeted Hybrid Capture RNA Sequencing in the Routine Molecular Categorization of Adolescent and Adult B-Lineage Acute Lymphoblastic Leukemia: A Real-World Experience
inferred← citeshttps://doi.org/10.1007/s44258-024-00033-3openalex-snapshot
Challenges and prospects in utilizing technologies for gene fusion analysis in cancer diagnostics
inferred← citeshttps://doi.org/10.1016/j.bbcan.2021.188571openalex-snapshot
Data-driven approaches to advance research and clinical care for pediatric cancer
inferred← citeshttps://doi.org/10.1016/j.canlet.2016.02.010openalex-snapshot
Novel fusion transcripts in bladder cancer identified by RNA-seq
inferred← citeshttps://doi.org/10.1016/j.ccell.2018.03.021openalex-snapshot
Germline Genetic IKZF1 Variation and Predisposition to Childhood Acute Lymphoblastic Leukemia
inferred← citeshttps://doi.org/10.1016/j.ccell.2019.06.007openalex-snapshot
Mechanisms of Progression of Myeloid Preleukemia to Transformed Myeloid Leukemia in Children with Down Syndrome
inferred← citeshttps://doi.org/10.1016/j.cell.2019.01.025openalex-snapshot
Widespread and Functional RNA Circularization in Localized Prostate Cancer
inferred← citeshttps://doi.org/10.1016/j.cell.2021.07.016openalex-snapshot
A proteogenomic portrait of lung squamous cell carcinoma
inferred← citeshttps://doi.org/10.1016/j.celrep.2019.09.009openalex-snapshot
Genetic Heterogeneity of BRAF Fusion Kinases in Melanoma Affects Drug Responses
inferred← citeshttps://doi.org/10.1016/j.celrep.2019.09.071openalex-snapshot
Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design
inferred← citeshttps://doi.org/10.1016/j.celrep.2021.110047openalex-snapshot
Immuno-transcriptomic profiling of extracranial pediatric solid malignancies
inferred← citeshttps://doi.org/10.1016/j.celrep.2024.113826openalex-snapshot
The genomic and evolutionary landscapes of anaplastic thyroid carcinoma
inferred← citeshttps://doi.org/10.1016/j.euf.2017.12.003openalex-snapshot
Integrative Genomic Analysis of Coincident Cancer Foci Implicates CTNNB1 and PTEN Alterations in Ductal Prostate Cancer
inferred← citeshttps://doi.org/10.1016/j.jmoldx.2018.06.007openalex-snapshot
Analytical Validation of Clinical Whole-Genome and Transcriptome Sequencing of Patient-Derived Tumors for Reporting Targetable Variants in Cancer
inferred← citeshttps://doi.org/10.1016/j.jmoldx.2020.11.005openalex-snapshot
Development and Validation of an RNA Sequencing Assay for Gene Fusion Detection in Formalin-Fixed, Paraffin-Embedded Tumors
inferred← citeshttps://doi.org/10.1016/j.jmoldx.2021.05.008openalex-snapshot
Diagnostic Validation of a Clinical Laboratory-Oriented Targeted RNA Sequencing System for Detecting Gene Fusions in Hematologic Malignancies
inferred← citeshttps://doi.org/10.1016/j.jmoldx.2021.07.013openalex-snapshot
Practical Considerations for Using RNA Sequencing in Management of B-Lymphoblastic Leukemia
inferred← citeshttps://doi.org/10.1016/j.labinv.2025.104201openalex-snapshot
Integrative Genetic and Transcriptomic Subtyping Improves Prognosis Prediction in B-Lineage Acute Lymphoblastic Leukemia
inferred← citeshttps://doi.org/10.1016/j.modpat.2023.100387openalex-snapshot
PATZ1-Rearranged Tumors of the Central Nervous System: Characterization of a Pediatric Series of Seven Cases
inferred← citeshttps://doi.org/10.1016/j.modpat.2023.100388openalex-snapshot
Comprehensive Genomic Analysis of Cemento-Ossifying Fibroma
inferred← citeshttps://doi.org/10.1016/j.modpat.2025.100741openalex-snapshot
Molecular Profiling Reveals Novel Gene Fusions and Genetic Markers for Refined Patient Stratification in Pediatric Acute Lymphoblastic Leukemia
inferred← citeshttps://doi.org/10.1016/j.modpat.2025.100750openalex-snapshot
The MEF2D::NCOA2 Fusion Defines a Distinct Emerging Vulvovaginal Myxoid Epithelioid Tumor With Smooth Muscle Differentiation
inferred← citeshttps://doi.org/10.1016/j.neo.2021.12.008openalex-snapshot
RNA biomarkers from proximal liquid biopsy for diagnosis of ovarian cancer
inferred← citeshttps://doi.org/10.1016/j.oooo.2021.03.020openalex-snapshot
Detection of novel fusion genes by next-generation sequencing-based targeted RNA sequencing analysis in adenoid cystic carcinoma of head and neck
inferred← citeshttps://doi.org/10.1016/j.phrs.2025.107767openalex-snapshot
Age-linked DNA methylation and gene expression patterns in parameningeal head and neck alveolar rhabdomyosarcoma reveal CDK9 as a promising therapeutic target
inferred← citeshttps://doi.org/10.1016/j.semcancer.2020.12.020openalex-snapshot
Bioinformatics workflows for clinical applications in precision oncology
inferred← citeshttps://doi.org/10.1016/j.semcancer.2021.09.013openalex-snapshot
Transcriptomics paving the way for improved diagnostics and precision medicine of acute leukemia
inferred← citeshttps://doi.org/10.1016/j.ymthe.2018.10.022openalex-snapshot
Discovery of New Fusion Transcripts in a Cohort of Pediatric Solid Cancers at Relapse and Relevance for Personalized Medicine
inferred← citeshttps://doi.org/10.1016/s1470-2045(17)30155-9openalex-snapshot
DNA methylation-based classification and grading system for meningioma: a multicentre, retrospective analysis
inferred← citeshttps://doi.org/10.1038/modpathol.2016.129openalex-snapshot
Recurrent fusion of the genes FN1 and ALK in gastrointestinal leiomyomas
inferred← citeshttps://doi.org/10.1038/modpathol.2017.113openalex-snapshot
Inflammatory leiomyosarcoma is a distinct tumor characterized by near-haploidization, few somatic mutations, and a primitive myogenic gene expression signature
inferred← citeshttps://doi.org/10.1038/ncomms13331openalex-snapshot
Genomic analyses identify recurrent MEF2D fusions in acute lymphoblastic leukaemia
inferred← citeshttps://doi.org/10.1038/nrg.2017.96openalex-snapshot
Cancer transcriptome profiling at the juncture of clinical translation
inferred← citeshttps://doi.org/10.1038/s41375-019-0430-zopenalex-snapshot
PAX5 biallelic genomic alterations define a novel subgroup of B-cell precursor acute lymphoblastic leukemia
inferred← citeshttps://doi.org/10.1038/s41375-020-0774-4openalex-snapshot
Identifying IGH disease clones for MRD monitoring in childhood B-cell acute lymphoblastic leukemia using RNA-Seq
inferred← citeshttps://doi.org/10.1038/s41375-021-01185-6openalex-snapshot
Role of transcriptome sequencing in clinical diagnosis of B-cell acute lymphoblastic leukemia
inferred← citeshttps://doi.org/10.1038/s41375-022-01557-6openalex-snapshot
UBTF::ATXN7L3 gene fusion defines novel B cell precursor ALL subtype with CDX2 expression and need for intensified treatment
inferred← citeshttps://doi.org/10.1038/s41375-025-02758-5openalex-snapshot
DUX4-rearranged B-ALL: deciphering a biological and clinical conundrum
inferred← citeshttps://doi.org/10.1038/s41379-018-0008-8openalex-snapshot
MYB and MYBL1 in adenoid cystic carcinoma: diversity in the mode of genomic rearrangement and transcripts
inferred← citeshttps://doi.org/10.1038/s41379-018-0150-3openalex-snapshot
Aberrant receptor tyrosine kinase signaling in lipofibromatosis: a clinicopathological and molecular genetic study of 20 cases
inferred← citeshttps://doi.org/10.1038/s41379-019-0315-8openalex-snapshot
Synovial chondromatosis and soft tissue chondroma: extraosseous cartilaginous tumor defined by FN1 gene rearrangement
inferred← citeshttps://doi.org/10.1038/s41379-019-0334-5openalex-snapshot
Sclerosing epithelioid mesenchymal neoplasm of the pancreas – a proposed new entity
inferred← citeshttps://doi.org/10.1038/s41379-019-0445-zopenalex-snapshot
Spitz melanoma is a distinct subset of spitzoid melanoma
inferred← citeshttps://doi.org/10.1038/s41379-020-0457-8openalex-snapshot
PHF1 fusions cause distinct gene expression and chromatin accessibility profiles in ossifying fibromyxoid tumors and mesenchymal cells
inferred← citeshttps://doi.org/10.1038/s41388-020-1237-0openalex-snapshot
XCL1 expression correlates with CD8-positive T cells infiltration and PD-L1 expression in squamous cell carcinoma arising from mature cystic teratoma of the ovary
inferred← citeshttps://doi.org/10.1038/s41392-025-02161-7openalex-snapshot
Oncogenic gene fusions in cancer: from biology to therapy
inferred← citeshttps://doi.org/10.1038/s41408-022-00699-1openalex-snapshot
Integrative molecular profiling identifies two molecularly and clinically distinct subtypes of blastic plasmacytoid dendritic cell neoplasm
inferred← citeshttps://doi.org/10.1038/s41416-022-02067-zopenalex-snapshot
Drug response profiles in patient-derived cancer cells across histological subtypes of ovarian cancer: real-time therapy tailoring for a patient with low-grade serous carcinoma
inferred← citeshttps://doi.org/10.1038/s41417-022-00444-7openalex-snapshot
Expressed prognostic biomarkers for primary prostate cancer independent of multifocality and transcriptome heterogeneity
inferred← citeshttps://doi.org/10.1038/s41421-025-00830-zopenalex-snapshot
Landscape of gene fusions in hormone receptor-positive breast cancer reveals ADK fusions as drivers of progression and potential therapeutic targets
inferred← citeshttps://doi.org/10.1038/s41467-017-00050-4openalex-snapshot
Gaining comprehensive biological insight into the transcriptome by performing a broad-spectrum RNA-seq analysis
inferred← citeshttps://doi.org/10.1038/s41467-017-01176-1openalex-snapshot
Frequent miRNA-convergent fusion gene events in breast cancer
inferred← citeshttps://doi.org/10.1038/s41467-018-04492-2openalex-snapshot
Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients
inferred← citeshttps://doi.org/10.1038/s41467-018-04622-wopenalex-snapshot
A recurrent point mutation in PRKCA is a hallmark of chordoid gliomas
inferred← citeshttps://doi.org/10.1038/s41467-019-09374-9openalex-snapshot
Diagnosis of fusion genes using targeted RNA sequencing
inferred← citeshttps://doi.org/10.1038/s41467-020-16434-yopenalex-snapshot
Evolution and structure of clinically relevant gene fusions in multiple myeloma
inferred← citeshttps://doi.org/10.1038/s41467-021-24037-4openalex-snapshot
Fusion transcripts FYN-TRAF3IP2 and KHDRBS1-LCK hijack T cell receptor signaling in peripheral T-cell lymphoma, not otherwise specified
inferred← citeshttps://doi.org/10.1038/s41467-021-24677-6openalex-snapshot
Lineage-defined leiomyosarcoma subtypes emerge years before diagnosis and determine patient survival
inferred← citeshttps://doi.org/10.1038/s41467-022-28661-6openalex-snapshot
Single-cell gene fusion detection by scFusion
inferred← citeshttps://doi.org/10.1038/s41467-022-29224-5openalex-snapshot
Integrative multi-omics and drug response profiling of childhood acute lymphoblastic leukemia cell lines
inferred← citeshttps://doi.org/10.1038/s41467-022-29336-yopenalex-snapshot
Distinct genomic landscape of Chinese pediatric acute myeloid leukemia impacts clinical risk classification
inferred← citeshttps://doi.org/10.1038/s41467-022-30233-7openalex-snapshot
Feasibility of whole genome and transcriptome profiling in pediatric and young adult cancers
inferred← citeshttps://doi.org/10.1038/s41467-022-30874-8openalex-snapshot
Pilot study of bempegaldesleukin in combination with nivolumab in patients with metastatic sarcoma
inferred← citeshttps://doi.org/10.1038/s41467-023-37438-4openalex-snapshot
Etiology of oncogenic fusions in 5,190 childhood cancers and its clinical and therapeutic implication
inferred← citeshttps://doi.org/10.1038/s41467-023-38432-6openalex-snapshot
Multiplatform molecular profiling uncovers two subgroups of malignant peripheral nerve sheath tumors with distinct therapeutic vulnerabilities
inferred← citeshttps://doi.org/10.1038/s41467-023-38832-8openalex-snapshot
Drug screening at single-organoid resolution via bioprinting and interferometry
inferred← citeshttps://doi.org/10.1038/s41467-024-49811-yopenalex-snapshot
Epigenetic alterations affecting hematopoietic regulatory networks as drivers of mixed myeloid/lymphoid leukemia
inferred← citeshttps://doi.org/10.1038/s41467-024-53821-1openalex-snapshot
Genomic and transcriptomic landscape of human gastrointestinal stromal tumors
inferred← citeshttps://doi.org/10.1038/s41467-025-56229-7openalex-snapshot
Molecular and pharmacological heterogeneity of ETV6::RUNX1 acute lymphoblastic leukemia
inferred← citeshttps://doi.org/10.1038/s41467-025-61413-wopenalex-snapshot
Inferring chromosome segregation error stage and crossover in trisomic disorders with application to Down syndrome
inferred← citeshttps://doi.org/10.1038/s41467-025-63039-4openalex-snapshot
Molecular landscape, subtypes, and therapeutic vulnerabilities of central nervous system solitary fibrous tumors
inferred← citeshttps://doi.org/10.1038/s41525-024-00430-yopenalex-snapshot
CDK4 is co-amplified with either TP53 promoter gene fusions or MDM2 through distinct mechanisms in osteosarcoma
inferred← citeshttps://doi.org/10.1038/s41551-025-01564-9openalex-snapshot
Anchored random reverse primer sequencing for quantitative detection of novel gene fusions
inferred← citeshttps://doi.org/10.1038/s41586-020-1970-0openalex-snapshot
Genomic basis for RNA alterations in cancer
inferred← citeshttps://doi.org/10.1038/s41586-026-10982-xopenalex-snapshot
Functional chimeric mRNAs encode proteins in mammalian immunity
inferred← citeshttps://doi.org/10.1038/s41587-021-00936-1openalex-snapshot
The RNA Atlas expands the catalog of human non-coding RNAs
inferred← citeshttps://doi.org/10.1038/s41587-022-01247-9openalex-snapshot
Accurate detection of tumor-specific gene fusions reveals strongly immunogenic personal neo-antigens
inferred← citeshttps://doi.org/10.1038/s41588-018-0315-5openalex-snapshot
PAX5-driven subtypes of B-progenitor acute lymphoblastic leukemia
inferred← citeshttps://doi.org/10.1038/s41588-019-0569-6openalex-snapshot
Genomic landscape of lung adenocarcinoma in East Asians
inferred← citeshttps://doi.org/10.1038/s41598-017-04743-0openalex-snapshot
Biochemical and genetic predictors of overall survival in patients with metastatic pancreatic cancer treated with capecitabine and nab-paclitaxel
inferred← citeshttps://doi.org/10.1038/s41598-017-07070-6openalex-snapshot
GFusion: an Effective Algorithm to Identify Fusion Genes from Cancer RNA-Seq Data
inferred← citeshttps://doi.org/10.1038/s41598-019-40786-1openalex-snapshot
Integrated analysis of relapsed B-cell precursor Acute Lymphoblastic Leukemia identifies subtype-specific cytokine and metabolic signatures
inferred← citeshttps://doi.org/10.1038/s41598-019-57311-zopenalex-snapshot
Landscape of transcriptome variations uncovering known and novel driver events in colorectal carcinoma
inferred← citeshttps://doi.org/10.1038/s41598-020-59214-wopenalex-snapshot
Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing
inferred← citeshttps://doi.org/10.1038/s41598-020-65911-3openalex-snapshot
Genome-wide transcriptome profiling of ex-vivo precision-cut slices from human pancreatic ductal adenocarcinoma
inferred← citeshttps://doi.org/10.1038/s41598-023-44965-zopenalex-snapshot
Comparing P53 expression and genome-wide transcriptome profiling to Comet assay in lymphocytes from melanoma patients and healthy controls
inferred← citeshttps://doi.org/10.1038/s41598-025-26481-4openalex-snapshot
Genomic alterations linked to recurrence risk in high-grade serous ovarian cancer revealed by deep targeted sequencing
inferred← citeshttps://doi.org/10.1038/s41598-025-34152-7openalex-snapshot
Genetic landscape of pediatric acute myeloid leukemia in Taiwan
inferred← citeshttps://doi.org/10.1038/s41698-021-00183-2openalex-snapshot
Targeting the epichaperome as an effective precision medicine approach in a novel PML-SYK fusion acute myeloid leukemia
inferred← citeshttps://doi.org/10.1038/s41698-021-00215-xopenalex-snapshot
Acquired JAK2 mutations confer resistance to JAK inhibitors in cell models of acute lymphoblastic leukemia
inferred← citeshttps://doi.org/10.1038/s41698-023-00479-5openalex-snapshot
Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia
inferred← citeshttps://doi.org/10.1038/s41698-024-00654-2openalex-snapshot
PUM1-TRAF3 fusion protein activates non-canonical NF-κB signaling via rescued NIK in biliary tract cancer
inferred← citeshttps://doi.org/10.1038/s41698-026-01397-yopenalex-snapshot
Comparison of gene fusion detection algorithms reveals frequently overlooked driver fusions in hematologic malignancies
inferred← citeshttps://doi.org/10.1038/s41698-026-01623-7openalex-snapshot
Integrated prediction of lung cancer histology and molecular profiles from small bronchoscopic tumor specimens
inferred← citeshttps://doi.org/10.1038/s42003-024-06307-1openalex-snapshot
MDM2 amplification in rod-shaped chromosomes provides clues to early stages of circularized gene amplification in liposarcoma
inferred← citeshttps://doi.org/10.1038/s43856-026-01507-8openalex-snapshot
Patient-specific alterations in blood plasma cfRNA profiles enable accurate classification of cancer patients and controls
inferred← citeshttps://doi.org/10.1038/s44276-025-00127-4openalex-snapshot
Activation of FGFR genes by genetic and epigenetic alterations in uterine leiomyomas
inferred← citeshttps://doi.org/10.1038/srep21597openalex-snapshot
Comparative assessment of methods for the fusion transcripts detection from RNA-Seq data
inferred← citeshttps://doi.org/10.1073/pnas.1606220113openalex-snapshot
Global analysis of somatic structural genomic alterations and their impact on gene expression in diverse human cancers
inferred← citeshttps://doi.org/10.1074/mcp.ra119.001456openalex-snapshot
FusionPro, a Versatile Proteogenomic Tool for Identification of Novel Fusion Transcripts and Their Potential Translation Products in Cancer Cells*
inferred← citeshttps://doi.org/10.1080/10428194.2016.1219902openalex-snapshot
Diagnostic evaluation of RNA sequencing for the detection of genetic abnormalities associated with Ph-like acute lymphoblastic leukemia (ALL)
inferred← citeshttps://doi.org/10.1080/10428194.2017.1357174openalex-snapshot
ChimericNUP98–NSD1transcripts from the cryptic t(5;11)(q35.2;p15.4) in adult de novo acute myeloid leukemia
inferred← citeshttps://doi.org/10.1080/10428194.2020.1797006openalex-snapshot
RNA-sequencing of acute promyelocytic leukemia primary blasts reveals novel molecular biomarkers of early death events
inferred← citeshttps://doi.org/10.1080/15476286.2021.1940047openalex-snapshot
Comparative study of bioinformatic tools for the identification of chimeric RNAs from RNA Sequencing
inferred← citeshttps://doi.org/10.1084/jem.20232028openalex-snapshot
EML4-ALK fusions drive lung adeno-to-squamous transition through JAK-STAT activation
inferred← citeshttps://doi.org/10.1093/abbs/gmy112openalex-snapshot
Identification and characterization of novel fusion genes in prostate cancer by targeted RNA capture and next-generation sequencing
inferred← citeshttps://doi.org/10.1093/annonc/mdx545openalex-snapshot
Clinical and molecular characterization of patients with cancer of unknown primary in the modern era
inferred← citeshttps://doi.org/10.1093/annonc/mdx682openalex-snapshot
Informatics for cancer immunotherapy
inferred← citeshttps://doi.org/10.1093/bib/bbae251openalex-snapshot
RTCpredictor: identification of read-through chimeric RNAs from RNA sequencing data
inferred← citeshttps://doi.org/10.1093/bib/bbag059openalex-snapshot
A de novo assembly based fusion gene detection concept based on DNA-seq data of 100 Ewing sarcoma cases
inferred← citeshttps://doi.org/10.1093/bib/bbw143openalex-snapshot
hppRNA—a Snakemake-based handy parameter-free pipeline for RNA-Seq analysis of numerous samples
inferred← citeshttps://doi.org/10.1093/bioinformatics/btag252openalex-snapshot
Detecting unannotated splicing events in short-read RNA-seq with SAMI, a UMI-aware Nextflow pipeline
inferred← citeshttps://doi.org/10.1093/bioinformatics/bty091openalex-snapshot
STAR Chimeric Post for rapid detection of circular RNA and fusion transcripts
inferred← citeshttps://doi.org/10.1093/bioinformatics/btz346openalex-snapshot
Alignment-free filtering for cfNA fusion fragments
inferred← citeshttps://doi.org/10.1093/gigascience/giaa054openalex-snapshot
Fcirc: A comprehensive pipeline for the exploration of fusion linear and circular RNAs
inferred← citeshttps://doi.org/10.1093/gigascience/giab080openalex-snapshot
Fusion transcripts and their genomic breakpoints in polyadenylated and ribosomal RNA–minus RNA sequencing data
inferred← citeshttps://doi.org/10.1093/gigascience/giad099openalex-snapshot
FAIR data retrieval for sensitive clinical research data in Galaxy
inferred← citeshttps://doi.org/10.1093/gigascience/giy062openalex-snapshot
Massive NGS data analysis reveals hundreds of potential novel gene fusions in human cell lines
inferred← citeshttps://doi.org/10.1093/nar/gkab054openalex-snapshot
Aberrant splicing in neuroblastoma generates RNA-fusion transcripts and provides vulnerability to spliceosome inhibitors
inferred← citeshttps://doi.org/10.1093/nar/gkad705openalex-snapshot
SFyNCS detects oncogenic fusions involving non-coding sequences in cancer
inferred← citeshttps://doi.org/10.1093/nar/gkae258openalex-snapshot
Discovery of a polymorphic gene fusion via bottom-up chimeric RNA prediction
inferred← citeshttps://doi.org/10.1093/nar/gkaf078openalex-snapshot
FuSViz—visualization and interpretation of structural variation using cancer genomics and transcriptomics data
inferred← citeshttps://doi.org/10.1093/nar/gkaf1361openalex-snapshot
Evolutionary hotspots of structural variation drive inter-individual differences in the expression of fusion transcripts in the human brain
inferred← citeshttps://doi.org/10.1093/nar/gkv1234openalex-snapshot
Comprehensive evaluation of fusion transcript detection algorithms and a meta-caller to combine top performing methods in paired-end RNA-seq data
inferred← citeshttps://doi.org/10.1093/nar/gkx315openalex-snapshot
ChimeRScope: a novel alignment-free algorithm for fusion transcript prediction using paired-end RNA-Seq data
inferred← citeshttps://doi.org/10.1093/nar/gkz1223openalex-snapshot
The landscape of chimeric RNAs in non-diseased tissues and cells
inferred← citeshttps://doi.org/10.1093/nargab/lqab112openalex-snapshot
ChiTaH: a fast and accurate tool for identifying known human chimeric sequences from high-throughput sequencing data
inferred← citeshttps://doi.org/10.1093/nargab/lqz025openalex-snapshot
ScaR—a tool for sensitive detection of known fusion transcripts: establishing prevalence of fusions in testicular germ cell tumors
inferred← citeshttps://doi.org/10.1097/hs9.0000000000000250openalex-snapshot
A Simple RNA Target Capture NGS Strategy for Fusion Genes Assessment in the Diagnostics of Pediatric B‐cell Acute Lymphoblastic Leukemia
inferred← citeshttps://doi.org/10.1101/120295openalex-snapshot
STAR-Fusion: Fast and Accurate Fusion Transcript Detection from RNA-Seq
inferred← citeshttps://doi.org/10.1101/121616openalex-snapshot
Histologically resolved spatial multi-omics of human oral squamous cell carcinoma
inferred← citeshttps://doi.org/10.1101/138800openalex-snapshot
Towards selective-alignment: Bridging the accuracy gap between alignment-based and alignment-free transcript quantification
inferred← citeshttps://doi.org/10.1101/183889openalex-snapshot
Genomic basis for RNA alterations revealed by whole-genome analyses of 27 cancer types
inferred← citeshttps://doi.org/10.1101/2020.03.15.993089openalex-snapshot
Queryfuse is a sensitive algorithm for detection of gene-specific fusions
inferred← citeshttps://doi.org/10.1101/2020.04.20.050252openalex-snapshot
Dysregulated gene expression through TP53 promoter swapping in osteosarcoma
inferred← citeshttps://doi.org/10.1101/2021.05.11.21256306openalex-snapshot
Exploring the extracellular transcriptome in seminal plasma for non-invasive prostate cancer diagnosis
inferred← citeshttps://doi.org/10.1101/2021.05.17.441778openalex-snapshot
Detection of fusion transcripts and their genomic breakpoints from RNA sequencing data
inferred← citeshttps://doi.org/10.1101/2022.05.09.490894openalex-snapshot
Integrative multi-omics analysis reveals molecular subtypes and tumor evolution of synovial sarcoma
inferred← citeshttps://doi.org/10.1101/2022.08.16.504208openalex-snapshot
Novel gene-intergenic fusion involving ubiquitin E3 ligase UBE3C causes distal hereditary motor neuropathy: A new mechanism for motor neuron degeneration
inferred← citeshttps://doi.org/10.1101/2022.11.16.516773openalex-snapshot
Germline determinants of the prostate tumor genome
inferred← citeshttps://doi.org/10.1101/2022.11.27.518071openalex-snapshot
A 3D genome atlas of genetic variants and their pathological effects
inferred← citeshttps://doi.org/10.1101/2023.02.01.526553openalex-snapshot
The gene expression classifier ALLCatchR identifies B-precursor ALL subtypes and underlying developmental trajectories across age
inferred← citeshttps://doi.org/10.1101/2023.05.24.23290388openalex-snapshot
Patient-specific alterations in blood plasma cfRNA profiles enable accurate classification of cancer patients and controls
inferred← citeshttps://doi.org/10.1101/2023.11.07.565950openalex-snapshot
The neuronal homeobox transcription factor HMX3 is a crucial vulnerability factor in MECOM-negative KMT2A::MLLT3 acute myelomonocytic leukemia
inferred← citeshttps://doi.org/10.1101/2024.03.13.584810openalex-snapshot
CDK4 is co-amplified with either TP53 promoter gene fusions or MDM2 through distinct mechanisms in osteosarcoma
showing the first 200 of 384 · page through all 384
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.