Identifying fibroblast subtypes in thyroid cancer
AssigneeVanderbilt University
InventorsVivian L. Weiss, Matthew Loberg, George Xu
Life of this patent
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Abstract
Identifying a fibroblast subtype in a thyroid cancer involves obtaining a fine needle aspiration (FNA) biopsy sample from a subject, the sample including nucleic acids; assaying the nucleic acids in the sample for an increase in the amount of mRNA produced by genes of a fibroblast gene signature relative to a control level of mRNA produced by the genes in a sample obtained from a healthy subject; and identifying the fibroblast subtype if there is an increase in the amount of mRNA in the sample relative to the control level.
Claims16
A method for identifying enrichment of a fibroblast subtype in a thyroid cancer, comprising:
- obtaining biopsy sample from a subject, the sample including nucleic acids;
- assaying the nucleic acids in the sample for an increase in the amount of mRNA produced by genes consisting of 3-80 of the genes set forth in Table 1A, Table 1B, Table 1C, Table 1D, Table 1E, Table 2A, Table 2B, Table 2C, Table 2D, Table 2E, Table 2F, Table 3, Table 4, and Table 5 relative to a control level of mRNA produced by the genes in a sample obtained from a healthy subject;
- and
- identifying an enrichment of the fibroblast subset population if there is an increase in the amount of mRNA in the sample relative to the control level.
A method for identifying a fibroblast subtype, macrophage subtype, or myofibroblast subtypes in a thyroid cancer, comprising:
- obtaining biopsy sample from a subject, the sample including nucleic acids;
- assaying the nucleic acids in the sample for an increase in the amount of mRNA produced by genes consisting of 3-80 of the genes set forth in Table 1A, Table 1B, Table 1C, Table 1D, Table 1E, Table 2A, Table 2B, Table 2C, Table 2D, Table 2E, Table 2F, Table 3, Table 4, and Table 5 relative to a control level of mRNA produced by the genes in a sample obtained from a healthy subject;
- and
- and
- identifying an enrichment of fibroblast subtype, macrophage subtype, or myofibroblast subtypes if there is an increase in the amount of mRNA in the sample relative to the control level.
A method of detecting expression of genes in a fine needle aspiration (FNA) biopsy sample from a subject, comprising the steps of:
- determining expression levels in the FNA biopsy sample of each of the gene of a fibroblast gene signature, wherein the fibroblast gene signature comprises 3-80 of the genes set forth in Table 1A, Table 1B, Table 1C, Table 1D, Table 1E, Table 2A, Table 2B, Table 2C, Table 2D, Table 2E, Table 2F, Table 3, Table 4, and Table 5;
- wherein the expression levels of each of the genes are determined by sequencing genetic material in the FNA biopsy sample.
Dependencies are inferred from the claim text.