Supplementary Table 2.
Complete list of genes with altered expression (n=150) in thyroid tumors of ThrbPV/PV
| Gene symbol | Accession no. | Adjusted P value | Fold change | Gene name |
|---|---|---|---|---|
| Upregulated genes | ||||
| Fgg | NM | 133862 | 0.025 | 10.868 |
| Slc39a4 | BC023498 | 0.034 | 9.088 | solute carrier family 39 (zinc transporter), member 4 |
| Car4 | NM_007607 | 0.025 | 6.695 | carbonic anhydrase 4 |
| Slc5a5 | AF380353 | 0.024 | 5.979 | solute carrier family 5 (sodium iodide symporter), member 5 |
| Shh | AV304616 | 0 | 5.804 | sonic hedgehog |
| Got1 | AA792094 | 0.037 | 5.784 | glutamate oxaloacetate transaminase 1, soluble |
| Fam163a | BB183509 | 0.005 | 5.626 | family with sequence similarity 163, member A |
| Olfm4 | AV290148 | 0.025 | 5.517 | olfactomedin 4 |
| Bcat1 | X17502 | 0.035 | 5.22 | branched chain aminotransferase 1, cytosolic |
| Gm266 | BB829749 | 0.008 | 5.032 | predicted gene 266 |
| Ppp2r3a | AI642021 | 0.016 | 4.636 | protein phosphatase 2 (formerly 2A), regulatory subunit B", alpha |
| Sbf1 | AV121839 | 0.035 | 4.389 | SET binding factor 1 |
| Esrrb | AV333667 | 0.024 | 4.003 | estrogen related receptor, beta |
| Muc4 | AF218265 | 0.033 | 3.853 | mucin 4 |
| B4galnt2 | AI593864 | 0.017 | 3.548 | beta-1,4-N-acetyl-galactosaminyl transferase 2 |
| 8430419L09Rik | NM 028982 | 0.022 | 3.541 | RIKEN cDNA 8430419L09 gene |
| Lad1 | NM_133664 | 0.024 | 3.354 | ladinin |
| Slc22a23 | BM234253 | 0.019 | 3.278 | solute carrier family 22, member 23 |
| Ankrd40 | BB213578 | 0.016 | 3.229 | ankyrin repeat domain 40 |
| Cldn6 | BC005718 | 0.03 | 3.215 | claudin 6 |
| Fxyd4 | NM_033648 | 0.025 | 3.112 | FXYD domain-containing ion transport regulator 4 |
| Tmed6 | NM_025458 | 0.013 | 2.969 | transmembrane emp24 protein transport domain containing 6 |
| Kif5c | AI844677 | 0.039 | 2.936 | kinesin family member 5C |
| Rbm20 | AK003783 | 0.024 | 2.906 | RNA binding motif protein 20 |
| Kdm6b | BB494168 | 0.03 | 2.876 | KDM1 lysine (K)-specific demethylase 6B |
| Pcbd1 | NM_025273 | 0.015 | 2.864 | pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (TCF1) 1 |
| BC017612 | NM_133214 | 0.045 | 2.848 | cDNA sequence BC017612 |
| AI314604 | BE991175 | 0.016 | 2.819 | expressed sequence AI314604 |
| C4bp | NM_007576 | 0.01 | 2.815 | complement component 4 binding protein |
| Dusp14 | AK009744 | 0.034 | 2.793 | dual specificity phosphatase 14 |
| Suclg2 | BF608645 | 0.017 | 2.778 | succinate-Coenzyme A ligase, GDP-forming, beta subunit |
| Slmo1 | BB835597 | 0.017 | 2.766 | slowmo homolog1 (Drosophila) |
| Mtm1 | NM_019926 | 0.039 | 2.732 | X-linked myotubular myopathy gene 1 |
| B3gnt1 | AV032053 | 0.043 | 2.654 | UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 1 |
| Tceal1 | BC011290 | 0.037 | 2.65 | transcription elongation factor A (SII)-like 1 |
| Rshl2a | AA544511 | 0.037 | 2.643 | radial spokehead-like 2A; radial spoke 3A homolog (Chlamydomonas) |
| Mapk6 | BC024684 | 0.033 | 2.588 | mitogen-activated protein kinase 6 (Extracellular signal-regulated kinase 3) (ERK-3) |
| Thy1 | AV028402 | 0.03 | 2.574 | thymus cell antigen 1, theta |
| Grhl3 | AV231424 | 0.013 | 2.53 | grainyhead-like 3 (Drosophila) |
| Trpm3 | BB125842 | 0.037 | 2.53 | transient receptor potential cation channel, subfamily M, member 3 |
| Ddr1 | BF225985 | 0.049 | 2.497 | discoidin domain receptor family, member 1 |
| Rcor1 | AW543416 | 0.028 | 2.493 | REST corepressor 1 |
| LOC100045988 | BM199323 | 0.039 | 2.49 | similar to OPR |
| Socs1 | AB000710 | 0.015 | 2.474 | suppressor of cytokine signaling 1 |
| Lsm2 | AF204156 | 0.025 | 2.466 | LSM2 homolog, U6 small nuclear RNA associated (S. cerevisiae) |
| Emp2 | AF083876 | 0.032 | 2.427 | epithelial membrane protein 2 |
| Gm941 | BB479096 | 0.032 | 2.4 | predicted gene 941 |
| Dync1i1 | NM_010063 | 0.046 | 2.351 | dynein cytoplasmic 1 intermediate chain 1 |
| Fut9 | AU067636 | 0.013 | 2.317 | fucosyltransferase 9 |
| Rtn4ip1 | NM_130892 | 0.01 | 2.299 | reticulon 4 interacting protein 1 |
| Lamc2 | NM_008485 | 0.018 | 2.259 | laminin, gamma 2 |
| Rfx4 | AV255458 | 0.024 | 2.253 | regulatory factor X, 4 (influences HLA class II expression) |
| Mt3 | NM 013603 | 0.022 | 2.208 | metallothionein 3 |
| Atrn | AW558010 | 0.043 | 2.181 | attractin |
| Grhl2 | AK005410 | 0.049 | 2.099 | grainyhead-like 2 (Drosophila) |
| Rnasek | BI 156989 | 0.047 | 2.094 | ribonuclease, RNase K |
| Psd3 | NM 030263 | 0.027 | 2.088 | pleckstrin and Sec7 domain containing 3 |
| Lonp1 | AK004820 | 0.026 | 2.083 | lon peptidase 1, mitochondrial |
| Rfx5 | BB392192 | 0.013 | 2.076 | regulatory factor X, 5 (influences HLA class II expression) |
| A330068G13Rik | BB246530 | 0.045 | 2.062 | RIKEN cDNA A330068G13 gene |
| 3110043O21Rik | AK014175 | 0.034 | 2.02 | RIKEN cDNA 3110043O21 gene |
| Map6d1 | BB762333 | 0.045 | 1.951 | MAP6 domain containing 1 |
| Hnf1b | AI987804 | 0.024 | 1.949 | HNF1 homeobox B |
| Hira | AW537496 | 0.017 | 1.94 | histone cell cycle regulation defective homologA (S. cerevisiae) |
| C030005G22Rik | BB355326 | 0.024 | 1.935 | RIKEN cDNA C030005G22 gene |
| Gfra1 | BE534815 | 0.025 | 1.904 | glial cell line derived neurotrophic factor family receptor alpha 1 |
| Ppif | NM_134084 | 0.043 | 1.883 | peptidylprolyl isomerase F (cyclophilin F) |
| Arl13b | AV225959 | 0.017 | 1.856 | ADP-ribosylation factor-like 13B |
| 2210409E12Rik | NM 028218 | 0.008 | 1.835 | RIKEN cDNA 2210409E12 gene; coilin |
| Hmga1 | NM_016660 | 0.048 | 1.826 | high mobility group AT-hook I, related sequence 1 |
| Rrn3 | AA866997 | 0.028 | 1.815 | RRN3 RNA polymerase I transcription factor homolog (yeast) |
| Idh2 | NM_008322 | 0.032 | 1.81 | isocitrate dehydrogenase 2 (NADP+), mitochondrial |
| Ccnj | BB051001 | 0.024 | 1.764 | cyclin J |
| Med20 | NM_020048 | 0.032 | 1.759 | mediator complex subunit 20 |
| Fastkd3 | AK009264 | 0.043 | 1.739 | FAST kinase domains 3 |
| 4930420K17Rik | BB323696 | 0.024 | 1.727 | RIKEN cDNA 4930420K17 gene |
| Cyb5b | NM_025558 | 0.024 | 1.697 | cytochrome b5 type B |
| BC037704 | BM938208 | 0.045 | 1.691 | cDNA sequence BC037704 |
| Tomm40 | AF109918 | 0.033 | 1.654 | translocase of outer mitochondrial membrane 40 homolog (yeast) |
| Egln3 | BB284358 | 0.043 | 1.646 | EGL nine homolog 3 (C. elegans) |
| Flrt1 | BQ173985 | 0.03 | 1.638 | fibronectin leucine rich transmembrane protein 1 |
| Nil | NM_008350 | 0.028 | 1.637 | interleukin 11 |
| Usp3 | BM206593 | 0.04 | 1.56 | ubiquitin specific peptidase 3 |
| Hspa4l | NM_011020 | 0.048 | 1.535 | heat shock protein 4 like |
| Lrrc47 | AK013512 | 0.016 | 1.523 | leucine rich repeat containing47 |
| Dph2 | AK011199 | 0.024 | 1.51 | DPH2 homolog (S. cerevisiae) |
| Gbf1 | BM948896 | 0.013 | 1.506 | golgi-specific brefeldin A-resistance factor 1 |
| Downregulated genes | ||||
| Krt8 | M21836 | 0.05 | 0.667 | keratin 8 |
| Otud7a | NM_130880 | 0.043 | 0.647 | OTU domain containing 7A |
| Rnf130 | BE948550 | 0.037 | 0.644 | ring finger protein 130 |
| BC063263 | BM211194 | 0.048 | 0.625 | cDNA sequence BC063263 |
| Ttc13 | BB492914 | 0.043 | 0.605 | tetratricopeptide repeat domain 13 |
| Sp3 | AK004607 | 0.044 | 0.602 | trans-acting transcription factor 3 |
| C430049A07Rik | AK021261 | 0.015 | 0.595 | RIKEN cDNA C430049A07 gene |
| Rpl11 | AK014593 | 0.009 | 0.594 | ribosomal protein L11 |
| 2900010M23Rik | AV046927 | 0.024 | 0.584 | RIKEN cDNA 2900010M23 gene |
| N6amt2 | BF730076 | 0.049 | 0.584 | N-6 adenine-specific DNA methyltransferase 2 (putative) |
| Sra1 | BG074964 | 0.028 | 0.576 | steroid receptor RNA activator 1 |
| Gfod1 | AV220135 | 0.028 | 0.576 | glucose-fructose oxidoreductase domain containing 1 |
| Foxn3 | BM196962 | 0.049 | 0.572 | forkhead box N3 |
| Mbd5 | BB086698 | 0.048 | 0.57 | methyl-CpG binding domain protein 5 |
| 2810404F17Rik | AK012982 | 0.048 | 0.567 | RIKEN cDNA 2810404F17 gene |
| Pnliprp2 | AV060116 | 0.037 | 0.563 | pancreatic lipase-related protein 2 |
| Samd12 | AV347618 | 0.034 | 0.548 | sterile alpha motif domain containing 12 |
| Tacr3 | BB498416 | 0.048 | 0.543 | tachykinin receptor 3 |
| Rpl37a | AV066985 | 0.048 | 0.535 | ribosomal protein L37a |
| Il13ra2 | BC003723 | 0.043 | 0.533 | interleukin 13 receptor, alpha 2 |
| Elf2 | BC027739 | 0.048 | 0.518 | E74-like factor 2 |
| Agr2 | AV066597 | 0.007 | 0.511 | anterior gradient 2 (Xenopus laevis) |
| Thap4 | BB130418 | 0.024 | 0.505 | THAP domain containing 4 |
| BB187676 | BB313560 | 0.01 | 0.501 | expressed sequence BB187676 |
| Rock1 | BI662863 | 0.024 | 0.5 | Rho-associated coiled-coil containing protein kinase 1 |
| Rnf166 | BB870298 | 0.03 | 0.5 | ring finger protein 166 |
| Trove2 | BQ176653 | 0.043 | 0.499 | TROVE domain family, member 2 |
| Dnm3os | BB542096 | 0.008 | 0.491 | dynamin 3, opposite strand |
| Impact | BB524087 | 0.015 | 0.481 | imprinted and ancient |
| Oxtr | BB551848 | 0.044 | 0.475 | oxytocin receptor |
| Tgs1 | BM233196 | 0.045 | 0.465 | trimethylguanosine synthase homolog(S. cerevisiae) |
| Usp37 | BB398605 | 0.037 | 0.461 | ubiquitin specific peptidase 37 |
| D1Ertd75e | BG066069 | 0.016 | 0.459 | DNA segment, Chr 1, ERATO Doi 75, expressed |
| Tbc1d20 | BC002196 | 0.044 | 0.452 | TBC1 domain family, member 20 |
| Rpl37 | BF578245 | 0.027 | 0.45 | ribosomal protein L37 |
| 1700029I01Rik | BQ033755 | 0.037 | 0.445 | RIKEN cDNA 1700029I01 gene |
| AI481207 | AI481207 | 0.048 | 0.439 | expressed sequence AI481207 |
| Alcam | AV315205 | 0.047 | 0.437 | activated leukocyte cell adhesion molecule |
| Fjx1 | AV230815 | 0.017 | 0.436 | four jointed box 1 (Drosophila) |
| Spnb2 | BM213516 | 0.044 | 0.435 | spectrin beta 2 |
| Sec14l2 | BC005759 | 0.028 | 0.426 | SEC14-like 2 (S. cerevisiae) |
| Lman1 | BG071597 | 0.044 | 0.425 | lectin, mannose-binding, 1 |
| Zcchc14 | BB223737 | 0.015 | 0.413 | zinc finger, CCHC domain containing 14 |
| Golim4 | BM942873 | 0.014 | 0.41 | golgi integral membrane protein 4 |
| Fstl1 | BI452727 | 0.037 | 0.404 | follistatin-like 1 |
| Olfm1 | BB549310 | 0.025 | 0.366 | olfactomedin 1 |
| Afp | NM 007423 | 0.045 | 0.363 | alpha fetoprotein |
| Taok1 | BB151477 | 0.044 | 0.349 | TAO kinase 1 |
| Tmod3 | BB224629 | 0.017 | 0.347 | tropomodulin 3 |
| Cacna2d1 | BB559910 | 0.03 | 0.347 | calcium channel, voltage-dependent, alpha2/delta subunit 1 |
| Cldnd1 | AK012260 | 0.039 | 0.347 | claudin domain containing 1 |
| Pdlim4 | NM_019417 | 0.005 | 0.335 | PDZ and LIM domain 4 |
| Mia1 | NM_019394 | 0.016 | 0.332 | melanoma inhibitory activity 1 |
| Slc12a2 | BG069505 | 0.024 | 0.331 | solute carrier family 12, member 2 |
| Ggps1 | NM_010282 | 0.045 | 0.306 | geranylgeranyl diphosphate synthase 1 |
| Nr2f2 | BB053811 | 0.044 | 0.301 | nuclear receptor subfamily 2, group F, member 2 |
| Rc3h2 | BB527789 | 0.035 | 0.299 | ring finger and CCCH-type zinc finger domains 2 |
| Atxn2 | BE953583 | 0.009 | 0.286 | ataxin 2 |
| Tor1b | BB004887 | 0.03 | 0.276 | torsin family 1, member B |
| Zfp871 | BB008634 | 0.008 | 0.254 | zinc finger protein 871 |
| Cxcl17 | BC024561 | 0.015 | 0.227 | chemokine (C-X-C motif) ligand 17 |
| Map3k2 | AV381143 | 0.028 | 0.192 | mitogen-activated protein kinase kinase kinase 2 |
| Prdm6 | AV303905 | 0.031 | 0.102 | PR domain containing 6 |