High-throughput assay confirmation of a T-cell receptor pre-mRNA fragment as a blood-based inflammatory breast cancer biomarker
Ferrick-Kiddie, E. A.; Dommaraju, S.; Yao, J.; Smith, C. W.; Wang, X.; Woodward, W. A.; The MDACC Inflammatory Breast Cancer Team, ; Ueno, N. T.; Krishnamurthy, S.; Lambowitz, A. M.
Show abstract
Previous TGIRT-seq analysis of RNAs in Inflammatory Breast Cancer (IBC) patient tumors, peripheral blood mononuclear cells (PBMCs) and plasma identified a short T-cell receptor mRNA fragment (TRBJ1-6) as a potential IBC biomarker that was detected in plasma samples from IBC patients but not patients with non-inflammatory breast cancer or healthy donors. Here, we traced the origin of this TRBJ1-6 RNA fragment to IBC patient PBMCs and used a high-throughput RT-PCR/Cas12a assay with larger numbers of samples to confirm its prevalence in IBC patient PBMCs. Detection of this RNA was enhanced by T4 polynucleotide kinase treatment, indicating the presence of a 2,3-cyclic phosphate. Analysis of previous TGIRT-seq datasets revealed gene expression differences in IBC patient PBMCs that could contribute to TRBJ1-6 RNA prevalence in IBC patient PBMCs and plasma. Our results support the identification of the TRBJ1-6 RNA fragment as a novel, readily detectable blood-based RNA biomarker derived from IBC-patient immune cells, addressing a major unmet need for diagnosing IBC. TeaserA novel type of blood-based biomarker for diagnosis of Inflammatory Breast Cancer
Matching journals
The top 8 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- Differential haplotype expression in class I MHC genes during SARS-CoV-2 infection of human lung cell lines 93%
- Biological insights from plasma proteomics of non-small cell lung cancer patients treated with immunotherapy 93%
- TET proteins regulate Drosha expression and impact microRNAs in iNKT cells 92%
Similar papers in this journal
- Detection of Somatic Copy Number Deletion of CDKN2A Gene for Clinical Practices Based on Discovery of A Base-Resolution Common Deletion Region 94%
- Syngeneic model of carcinogen-induced tumor mimics basal/squamous, stromal-rich, and neuroendocrine molecular and immunological features of muscle-invasive bladder cancer 93%
- Extracellular vesicle molecular signatures characterize metastatic dynamicity in ovarian cancer 92%
Similar papers in this journal
- A transgenic line that reports CSF1R protein expression provides a definitive marker for the mouse mononuclear phagocyte system 92%
- Single-cell profiling of blood and cerebrospinal fluid in tuberculous meningitis 91%
- Single cell based high-throughput Ig and TCR repertoire sequencing analysis in rhesus macaques 91%
Similar papers in this journal
- Characterization of immunoactive and immunotolerant CD4+ T cells in breast cancer by measuring activity of signaling pathways that determine immune cell function 93%
- PRMT1 regulates EGFR and Wnt signaling pathways and is a promising target for combinatorial treatment of breast cancer 93%
- Immunosuppressive tumor microenvironment of osteosarcoma 92%
Similar papers in this journal
- HIV-1 control in vivo is related to the number but not the fraction of infected cells with viral unspliced RNA 93%
- HSATII RNA is induced via a non-canonical ATM-regulated DNA-damage response pathway and facilitates tumor cell proliferation and movement 92%
- Monocarboxylate transporter antagonism reveals metabolic vulnerabilities of viral-driven lymphomas 91%
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.