Systems, Methods, and Gene Signatures for Predicting the Biological Status of an Individual

A kit for predicting smoker status of an individual, comprising:

• a set of reagents that detects expression levels of the genes in a gene signature having fewer than 40 genes, the gene signature comprising AHHR, CDKN1C, LRRN3, PID1, GPR15, SASH1, CLEC10A, LINC00599, P2RY6, DSC2, F2R, SEMA6B, and TLR5 in a test sample;
• and
• instructions for using said kit for predicting smoker status in the individual.

A computer-implemented method for assessing a sample obtained from a subject, comprising:

• receiving, by a computer system including at least one hardware processor, a data set associated with the sample, the data set comprising quantitative expression data for a set of genes less than a whole genome, the set of genes comprising LRRN3, AHHR, CDKN1C, PID1, SASH1, GPR15, LINC00599, P2RY6, CLEC10A, SEMA6B, F2R, CTTNBP2, and GPR63;
• and
• generating, by the at least one hardware processor, a score based on the quantitative expression data for the set of genes in the received data set, wherein the score is based on fewer than 40 genes and is indicative of a predicted smoking status of the subject.

A kit for predicting smoker status of an individual, comprising:

• a set of reagents that detects expression levels of the genes in a gene signature having fewer than 40 genes, the gene signature comprising LRRN3, AHHR, CDKN1C, PID1, SASH1, GPR15, LINC00599, P2RY6, CLEC10A, SEMA6B, F2R, CTTNBP2, and GPR63 in a test sample;
• and
• instructions for using said kit for predicting smoker status in the individual.

25-45. (canceled)

A computer-implemented method for assessing a sample obtained from a subject, comprising:

• receiving, by a computer system including at least one hardware processor, a data set associated with the sample, the data set comprising quantitative expression data for a set of genes less than a whole genome, the set of genes comprising AHHR, CDKN1C, LRRN3, PID1, GPR15, SASH1, CLEC10A, LINC00599, P2RY6, DSC2, F2R, SEMA6B, TLR5, AK8, FSTL1, RGL1, VSIG4, C15orf54, CTTNBP2, RANK1, GSE1, GUCY1A3, LOC200772, MARC2, MIR4697HG, PTGFRN, ASGR2, B3GALT2, CYP4F22, FUCA1, GPR63, GUCY1B3, MB21D2, NLK, NR4A1, P2RY1, PF4, PTGFR, SH2D1B, ST6GALNAC1, TMEM163, TPPP3, and ZNF618;
• and
• generating, by the at least one hardware processor, a score based on the received data set, wherein the score is indicative of a predicted smoking status of the subject.

A kit for predicting smoker status of an individual, comprising:

• a set of reagents that detects expression levels of the genes in a gene signature in a test sample, the gene signature comprising AHHR, CDKN1C, LRRN3, PID1, GPR15, SASH1, CLEC10A, LINC00599, P2RY6, DSC2, F2R, SEMA6B, TLR5, AK8, FSTL1, RGL1, VSIG4, C15orf54, CTTNBP2, RANK1, GSE1, GUCY1A3, LOC200772, MARC2, MIR4697HG, PTGFRN, ASGR2, B3GALT2, CYP4F22, FUCA1, GPR63, GUCY1B3, MB21D2, NLK, NR4A1, P2RY1, PF4, PTGFR, SH2D1B, ST6GALNAC1, TMEM163, TPPP3, and ZNF618;
• and
• instructions for using said kit for predicting smoker status in the individual.

A computer-implemented method for assessing a sample obtained from a subject, comprising:

• receiving, by a computer system including at least one hardware processor, a data set associated with the sample, the data set comprising quantitative expression data for a set of genes less than a whole genome, the set of genes comprising AHHR, P2RY6, KLRG1, LRRN3, COX6B2, CTTNBP2, DSC2, F2R, GUCY1B3, MT2, NGFRAP1, REEP6, SASH1, and TBX21;
• and
• generating, by the at least one hardware processor, a score based on the quantitative expression data for the set of genes in the received data set, wherein the score is based on fewer than 40 genes and is indicative of a predicted smoking status of the subject.

A kit for predicting smoker status of an individual, comprising:

• a set of reagents that detects expression levels of the genes in a gene signature in a test sample, the gene signature comprising AHHR, P2RY6, KLRG1, LRRN3, COX6B2, CTTNBP2, DSC2, F2R, GUCY1B3, MT2, NGFRAP1, REEP6, SASH1, and TBX21, the gene signature comprising fewer than 40 genes;
• and
• instructions for using said kit for predicting smoker status in the individual.