Patent ID: 11946928
Assignee: TRUSTEES OF BOSTON UNIVERSITY
Field: Measurement (Instruments)
Classification: CPC G  C | IPC C  G

Claim 0:
1. A method comprising detecting the level of expression of one or more genes selected from at least one of:
at least one gene of Group A, at least one gene of Group B, at least one gene of Group C,
at least one gene of Group D, and at least one gene of Group E;
in a bronchial brushing, nasal brushing, or sputum sample obtained from a subject; and
the level of expression products of no more than 100 other genes is determined;, wherein:
i) the at least one gene of Group A comprises Zinc Finger Protein 493 (ZNF493);
ii) the at least one gene of Group B comprises Fat Atypical Cadherin 2 (FAT2);
iii) the at least one gene of Group C comprises at least one of: Argininosuccinate Lyase (ASL) and Coiled-Coil Domain Containing 160 (CCDC160);
iv) the at least one gene of Group D comprises at least one of: Long Intergenic Non-Protein Coding RNA 888 (LINC00888) and F-Box Protein 16 (FBX016); or
v) the at least one gene of Group E comprises DnaJ Heat Shock Protein Family Member C22 (DNAJC22); and, wherein Group A consists of:
ZNF493; ZNF519; ENSG00000271430; MYH7B; MKRNSP; ENSG00000270574;
VN1R83P; ENSG00000268555; ZNF577; NBPF11; SCUBE2; SGK2; BNIPL;
ENSG00000271533; PCDHGB6; LRP1; PCDHGB7; ENSG00000262877; ABCC5;
PMS2P4; TTC28-AS1; PRR24; CD81; RGL3; PTPRS; ENSG00000271011; ZNF286B;
GNB1L; PCDHGA12; SLC16A10; ZNF66; ENSG00000261584; ZNF311; ZNF718;
ENSG00000223745; RAB40A; ENSG00000268119; PCDHGA4; ENSG00000270589;
ENSG00000256142; DLL1; BRAFP1; PCDHGA11; FTX; FLYWCH1; NOVA1;
KANSL1; ZNF826P; ENSG00000196295; ENSG00000229036; TLE3; KLF8; LONRF2;
PCDHGB8P; ENSG00000259326; AOC2; RAPGEFL1; ARL10; ADAMTS10;
ENSG00000250303; TSHZ2; CRYM-AS1; ENSG00000213971; TVP23CP2;
ENSG00000234978; ZBTB12; PCDHGA9; RPS3AP29; KSR2; ENOSF1;
ENSG00000233175; ENSG00000260729; LINC00664; ZNF257; POU5F1P5; FN3K;
ZNF814; CYP2C19; ENSG00000270096; PDE11A; FAM13A-AS1; KCNMA1;
ENSG00000247270; ENSG00000270019; ENSG00000270154; ENSG00000248445;
ENSG00000234129; ENSG00000267169; ENSG00000261423; C1RL-AS1; NONOP2;
SLC26A5; STX18-AS1; AMT; ENSG00000232626; ENSG00000235834; RN7SL648P;
ENSG00000254634; ENSG00000236144; ACAP2-IT1; ENSG00000268472; TDRD6;
ENSG00000272563; SUDS3P1; PCDHGB4; FOXO3B; ENSG00000272977;
LINC00176; MY015A; GHRLOS; TTC28; ENSG00000271840; NBPF20; VANGL2;
JMJD7-PLA2G4B; ENSG00000267940; OGDHL; ENSG00000206195; KLF11;
TAPT1-AS1; TMEM59L; ACKR3; ENSG00000184441; KAT2A; SULT1A3; SIPA1L2;
RPL5P4; CTSF; ZNF208; CYP2E1; L3MBTL1; BENDS; ACACB; ENSG00000261087;
NFATC4; CES4A; ZFP2; BSN; ENSG00000254469; ZNF514; ENSG00000176593;
ENSG00000232116; OTX1; ENSG00000269918; AVIL; ENSG00000271971; MICU3;
GRAMD1A; C1QTNF6; KIF3C; ZACN; RPL7P46; PLA2G4F; SLX1A-SULT1A3;
ZNF135; OR2A9P; TMEM63C; TG; ENSG00000261502; ARLSB-AS1; ZNF705E;
PCDHGC5; GOLGA8A; PLEKHH1; PPAP2B; ENSG00000267481; OR7E7P;
ENSG00000259585; ENSG00000225210; TSSK1B; ENSG00000215022; STRC;
ENSG00000250290; UBAP1L; ENSG00000264112; LINC00959; SPATA41; CRYGS;
ZNF862; ENSG00000225032; PCED1B; SMAD6; ENSG00000264538; FRS3;
ENSG00000256139; NSUN5P1; LTBP4; ENSG00000267053; ENSG00000171282;
PCDHGA7; GREB1; ADAM1A; ENSG00000251323; ENSG00000271917;
ENSG00000253366; ENSG00000225241; IL11RA; PCDHB18; FAM85A; UPK3BP1;
ACADL; ENSG00000236055; ZNF285; and ENSG00000239665;, wherein Group B consists of:
LRP4; ZNF578; FAT2; FGFR3; MCC; SLC26A9; MKL2; AGKP1; KRT15; CSRNP3;
PKP1; FSTL3; NEURL1; JAG2; DACT2; TRO; NDRG1; ADCY2; IGSF3; NLGN4Y;
SALL2; SUSD4; ARSG; BCL11A; RNF165; TP63; UGT1A7; CACNA1A; PAPPA;
SULF2; RGS17; PIK3R1; SNX31; COL4A5; SNAI2; UGT1A5; SYNGR1;
ENSG00000213963; SV2A; FGFR2; KANK1; WNTSA; FZD7; SRRM3; SEMASA;
ZNF471; HYKK; PPM1L; ARHGAP28; UGT1A8; ARHGEF10; MT1X; FOXN1;
NTF3; SMOC2; USP44; FBXL16; EPAS1; EGFR; PTPRG; NEB; GDNF-AS1;
FAM117B; RERG; ZBTB47; ADAMTS9-AS2; PAPLN; NCKAP5; STK32A; FAT4;
LGR6; TPTE2P1; SLITRK6; TNC; EVPLL; POMGNT1; KCTD15; WSCD1; KIF7;
KIF1A; FRAS1; KRT5; ENSG00000174171; CDH11; ZFP28; GPRASP1; PRKY;
COL4A6; LSAMP; SYDE1; ENSG00000271880; RGMA; BOC; SLC2A9; WNT2B;
CDHR1; ENSG00000248705; TGFB2; NCAM1; LTB4R; TLE2; AP3B2; LRRC2;
MEGF6; RNF212; FBLN1; SLCO4C1; WNT3A; ZNF665; ESYT3; FREM2;
ARHGEF4; LURAP1; SETP21; COL7A1; B4GALNT4; FBN1; ZNF90; LRP1B;
ABCC9; ENSG00000256995; S1PR5; EFS; NPTX1; ENSG00000260197; UGT1A2P;
SLC16A2; MAN1C1; MARVELD1; FGF9; CIB2; LGR5; KIRREL; LTB4R2; SPTB;
ITPRIPL1; PHLDB1; SPRY1; DEPTOR; EPHA4; TTTY10; TET1; ZNF667; EPHB6;
ENSG00000250685; ENSG00000271738; IGFBP4; ARHGEF25; TRPV6; KCNB2;
SPRY2; DLK2; and CLUL1;, wherein Group C consists of:
ENSG00000258545; ENSG00000257512; ASL; CCDCl60; SMIM6; PLCB1;
TMEM125; C20orf201; CD38; ENSG00000268129; TSPAN2; DAPP1; IDH2; APOL4;
HRASLS2; C9orf66; BFSP1; DLG1-AS1; C16orf54; LAMP3; LYSMD2; PSMB9;
NR5A2; ENSG00000005189; COCH; CCDC67; XK; OR7E14P; LINC00589; F5;
PDE3A; RTP4; ENSG00000253474; ANTXR2; HCG4P3; FATE1; FBLN5;
ENSG00000259153; NMI; ENSG00000231901; PSMB8; SERF1A; MOCOS; GSTM1;
RAMP1; LINC00643; PRKG1; ENSG00000225335; LMO3; ENSG00000270659;
CNTF; ENSG00000272463; ENSG00000260552; FHL1; KIF18A; RARRES3;
TNFAIP8L3; PSMB10; ENSG00000227053; DPF1; GSTT2; TMEM176B; RPL7AP64;
CDKN2D; ENSG00000196826; MUC12; ENSG00000260806; GLIPR2; USP18;
ENSG00000238837; Cl9orf38; ABCC2; VWASA; SGOL2; PKIB; KLB; TMEM200C;
and SHH;, wherein Group D consists of:
LINC00888; FBX016; SCRN1; ENSG00000259508; LINC00467; MPC2; KIAA0895;
SEPW1; CALML4; ERICH2; SLC51B; FAM69A; ENSG00000259802;
ENSG00000249241; MRPS31; CCDCl76; DUSP14; TMEM17; VIM-AS1; GSTP1;
CCT6B; RUVBL1; ENSG00000267325; AAED1; SLC25A4; Clorf192; DYRK3;
ELK3; ENSG00000272092; LINC00326; B9D2; LINC00240; IFT43; CPNE8; SMIM22;
PHTF1; Cllorf70; APOO; SPAG1; CCDC65; DPCD; CCDCl04; RABL5;
ENSG00000263450; DNPH1; ENSG00000234478; ENSG00000233170; LINC01132;
IQCK; ENSG00000257698; ROPN1L; AHSA1; C21orf59; C15orf65;
ENSG00000271133; IL7; LXN; DNAL4; C6orf99; MAPS; Clorf189; LINC00948;
DHX40; GFM2; LRRC34; SPA17; ENSG00000261465; C21orf119; TUBA1A; GJB7;
TOMM34; NUDT7; LINC00908; ClOorf107; C20orf85; ARL3; DNAL1; CNTN5;
MYCBP; ENSG00000266916; ENSG00000260057; CYSTM1; ENSG00000236028;
UFC1; C9orf135; ENSG00000263011; DSTN; IFT57; C9orf116; MORN2; PPIL6;
LCA5L; DPY30; CEP97; AKAP14; ENSG00000272514; CAPSL; CC2D2A; OSCP1;
DYX1C1; PNLDC1; SPATA4; ZNF165; IGFBP7; CXorf58; C15orf26;
ENSG00000224049; TCTEX1D2; TCEAL3; ENSG00000258940; DYNC2LI1; and
PKIG; and, wherein Group E consists of:
C8orf76; DNAJC22; ENSG00000250508; SEC23B; SLC35B1; KRT23; MRPL47; NIP7;
NDUFV2; KCTD14; GTF3C6; ISOC2; SAP30; HSBP1; PSMA5; ENSG00000262823;
SEC61B; TIMM17A; CLIC5; RPN1; LACC1; MRPL54; PSMB5; UCHL3; C14orf166;
C2orf47; PPP1R2; C5orf15; DNAJA1; HIGD1A; MIF; RAB9A; CASP7; POMP;
SERHL2; BCCIP; GRK5; UBB; PARK7; CHCHD2; FAR2; DNAJC12; NT5C3A;
UFM1; CDK7; CCDCl67; CCT2; MORF4L2; CALM2; C4orf19; PSENEN; HSPA8;
GTF2B; NDUFAB1; DAD1; SMS; KBTBD4; AGR3; GPR160; TCP1; PSMA3; STS;
LAMTOR5; COX17; UGCG; PSMA6; COX6A1; SLC41A2; HSP90B1; PDIA4; NXT2;
LACTB2; RFK; DYNLT1; COX7A2; BOLA3; MTFP1; FOLH1; PSMD10; NDUFB4;
MRPL39; Clorf122; MMADHC; SEC61G; NDUFB3; SSR4; NRIP1; ANG; WBP5;
ABRACL; BIK; MRPS36; MOSPD1; SLIRP; MRPL13; CD24P4; ENSG00000113811;
LINC00493; SOD1; IGFBP6; PRDX4; ACTR6; SDF2L1; C19orf10; IL23A; BZW1P2;
CXCL17; and USMG5.