TABLE 3.
Top VAAST genes with greatest difference between responders and nonresponders
| Rank | Gene | Gene name | P valuea | VAAST | Gene function (if known)b |
|---|---|---|---|---|---|
|
| |||||
| 1 | CUBN | Cubilin | 7.32e-5 | 23.3 | Receptor for intrinsic factor-vitamin B12 complexes |
|
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| 2 | TMTC1 | Transmembrane and tetra-tricopeptide repeat containing 1 |
9.40e-5 | 17.1 | |
|
| |||||
| 3 | TMEM158 | Transmembrane protein 158 | .00035 | 23.8 | Surface receptor proposed to function in neuronal survival pathway |
|
| |||||
| 4 | ATMIN | ATM interactor | .00041 | 6.1 | |
|
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| 5 | MYOG | Myogenin | .00056 | 13.0 | |
|
| |||||
| 6 | NLRP10 | NLR family pyrin domain containing 10 | .00057 | 13.4 | Multifunctional negative regulator of inflammation and apoptosis |
|
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| 7 | ENP1 | Essential nuclear protein 1 | .00094 | 13.8 | |
|
| |||||
| 8 | NOS1 | Nitric oxide synthase 1 | .00094 | 11.2 | Synthesizes nitric oxide from L-arginine |
|
| |||||
| 9 | PRMT6 | Protein arginine methyltransferase 6 | .0011 | 8.5 | Stimulates polymerase activity by enhancing DNA binding and processivity |
|
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| 10 | ZFP28 | Zinc finger protein | .0023 | 10.7 | |
|
| |||||
| 11 | CASZ1 | Castor zinc finger 1 | .00298 | 15.3 | Tumor suppression, blood pressure variation |
|
| |||||
| 12 | VPS13C | Vacuolar protein sorting 13 homolog C | .00301 | 11.4 | |
|
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| 13 | FCGR2A | Fc fragment of IgG, low affinity IIa receptor |
.00305 | 14.6 | Found on phagocytic cells and involved with clearing of immune complexes |
|
| |||||
| 14 | OR56A5 | Olfactory receptor family 56 subfamily A member 5 |
.00318 | 13.0 | Smell perception |
|
| |||||
| 15 | RPA4 | Replication protein A4 | .00337 | 5.5 | DNA double-strand break repair, inhibition of viral replication |
|
| |||||
| 16 | ZNF853 | Zinc finger protein 853 | .00352 | 5.3 | |
|
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| 17 | TSKS | Testis specific serine kinase substrate | .00373 | 8.0 | Tumorigenesis pathways and progression |
|
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| 18 | MICAL2 | Microtubule associated monooxygenase, calponin and LIM domain containing 2 |
.00384 | 10.2 | |
|
| |||||
| 19 | CCDC50 | Coiled-coil domain containing 50 | .00401 | 11.1 | Hearing loss, effector of epidermal growth factor–mediated cell signaling |
|
| |||||
| 20 | ANP32D | Acidic nuclear phosphoprotein 32 family member D |
.00408 | 7.5 | Tumor suppressor |
|
| |||||
| 21 | RALGAPA1 | Ral GTPase activating protein alpha subunit 1 |
.00409 | 8.1 | |
|
| |||||
| 22 | C16orf46 | Chromosome 16 open reading frame | .00409 | 5.9 | |
|
| |||||
| 23 | ATP6V0A2 | ATPase lysosomal V0 subunit A2 | .00425 | 7.4 | Cutis laxa type II and wrinkly skin syndrome |
|
| |||||
| 24 | SPRR1A | Small proline-rich protein 1A | .0457 | 4.9 | |
|
| |||||
| 25 | PIH1D1 | PIH1domain containing 1 | .00464 | 2.1 | |
VAAST, Variant Annotation, Analysis, and Search Tool.
a
Unadjusted for multiple comparisons;
b
Gene functions per National Center for Biotechnology Information gene database (ncbi.nlm.nih.gov).
Manuck. Pharmacogenomics of 17P for recurrent PTB. Am J Obstet Gynecol 2014.