Profile of the Running ES Score & Positions of GeneSet Members on the Rank Ordered List
| Dataset | double_gel_and_single_gel_rma_expression_values_collapsed_to_symbols.class.cls #double_gel_8d_versus_double_gel_24h.class.cls #double_gel_8d_versus_double_gel_24h_repos |
| Phenotype | class.cls#double_gel_8d_versus_double_gel_24h_repos |
| Upregulated in class | double_gel_24h |
| GeneSet | NUCLEOPLASM |
| Enrichment Score (ES) | -0.43937677 |
| Normalized Enrichment Score (NES) | -1.7068741 |
| Nominal p-value | 0.0 |
| FDR q-value | 0.09910694 |
| FWER p-Value | 0.993 |
| PROBE | GENE SYMBOL | GENE_TITLE | RANK IN GENE LIST | RANK METRIC SCORE | RUNNING ES | CORE ENRICHMENT | |
|---|---|---|---|---|---|---|---|
| 1 | LMO4 | LMO4 Entrez, Source | LIM domain only 4 | 824 | 0.209 | -0.0427 | No |
| 2 | PITX2 | PITX2 Entrez, Source | paired-like homeodomain transcription factor 2 | 1047 | 0.177 | -0.0429 | No |
| 3 | PPARGC1A | PPARGC1A Entrez, Source | peroxisome proliferative activated receptor, gamma, coactivator 1, alpha | 1066 | 0.174 | -0.0279 | No |
| 4 | CIB1 | CIB1 Entrez, Source | calcium and integrin binding 1 (calmyrin) | 1605 | 0.128 | -0.0566 | No |
| 5 | MEN1 | MEN1 Entrez, Source | multiple endocrine neoplasia I | 1705 | 0.122 | -0.0526 | No |
| 6 | SMARCA2 | SMARCA2 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 | 1801 | 0.117 | -0.0489 | No |
| 7 | HDAC7A | HDAC7A Entrez, Source | histone deacetylase 7A | 2133 | 0.102 | -0.0643 | No |
| 8 | RB1 | RB1 Entrez, Source | retinoblastoma 1 (including osteosarcoma) | 2162 | 0.101 | -0.0569 | No |
| 9 | CHEK2 | CHEK2 Entrez, Source | CHK2 checkpoint homolog (S. pombe) | 2183 | 0.100 | -0.0491 | No |
| 10 | NAP1L2 | NAP1L2 Entrez, Source | nucleosome assembly protein 1-like 2 | 2268 | 0.097 | -0.0463 | No |
| 11 | PPARGC1B | PPARGC1B Entrez, Source | peroxisome proliferative activated receptor, gamma, coactivator 1, beta | 2782 | 0.077 | -0.0779 | No |
| 12 | XRCC6 | XRCC6 Entrez, Source | X-ray repair complementing defective repair in Chinese hamster cells 6 (Ku autoantigen, 70kDa) | 3080 | 0.069 | -0.0939 | No |
| 13 | NAP1L1 | NAP1L1 Entrez, Source | nucleosome assembly protein 1-like 1 | 3110 | 0.068 | -0.0897 | No |
| 14 | NFYB | NFYB Entrez, Source | nuclear transcription factor Y, beta | 3342 | 0.061 | -0.1014 | No |
| 15 | HIF1A | HIF1A Entrez, Source | hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) | 3715 | 0.052 | -0.1247 | No |
| 16 | MCRS1 | MCRS1 Entrez, Source | microspherule protein 1 | 3744 | 0.051 | -0.1220 | No |
| 17 | PPP1R9B | PPP1R9B Entrez, Source | protein phosphatase 1, regulatory subunit 9B, spinophilin | 3862 | 0.048 | -0.1263 | No |
| 18 | HCLS1 | HCLS1 Entrez, Source | hematopoietic cell-specific Lyn substrate 1 | 3872 | 0.048 | -0.1225 | No |
| 19 | NCR1 | NCR1 Entrez, Source | natural cytotoxicity triggering receptor 1 | 4097 | 0.042 | -0.1354 | No |
| 20 | PTF1A | PTF1A Entrez, Source | pancreas specific transcription factor, 1a | 4139 | 0.041 | -0.1346 | No |
| 21 | HDAC3 | HDAC3 Entrez, Source | histone deacetylase 3 | 4241 | 0.039 | -0.1387 | No |
| 22 | GEMIN6 | GEMIN6 Entrez, Source | gem (nuclear organelle) associated protein 6 | 4346 | 0.037 | -0.1431 | No |
| 23 | ELL2 | ELL2 Entrez, Source | elongation factor, RNA polymerase II, 2 | 4354 | 0.037 | -0.1402 | No |
| 24 | CDKN2A | CDKN2A Entrez, Source | cyclin-dependent kinase inhibitor 2A (melanoma, p16, inhibits CDK4) | 4610 | 0.032 | -0.1565 | No |
| 25 | ATXN1 | ATXN1 Entrez, Source | ataxin 1 | 4845 | 0.027 | -0.1716 | No |
| 26 | NAP1L4 | NAP1L4 Entrez, Source | nucleosome assembly protein 1-like 4 | 5089 | 0.022 | -0.1879 | No |
| 27 | TBP | TBP Entrez, Source | TATA box binding protein | 5140 | 0.021 | -0.1897 | No |
| 28 | IKBKAP | IKBKAP Entrez, Source | inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase complex-associated protein | 5226 | 0.020 | -0.1942 | No |
| 29 | EPAS1 | EPAS1 Entrez, Source | endothelial PAS domain protein 1 | 5306 | 0.019 | -0.1985 | No |
| 30 | TAF9 | TAF9 Entrez, Source | TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa | 5587 | 0.013 | -0.2184 | No |
| 31 | CDK9 | CDK9 Entrez, Source | cyclin-dependent kinase 9 (CDC2-related kinase) | 5738 | 0.010 | -0.2288 | No |
| 32 | NUDT21 | NUDT21 Entrez, Source | nudix (nucleoside diphosphate linked moiety X)-type motif 21 | 5776 | 0.009 | -0.2307 | No |
| 33 | ACTB | ACTB Entrez, Source | actin, beta | 5788 | 0.009 | -0.2307 | No |
| 34 | SUB1 | SUB1 Entrez, Source | SUB1 homolog (S. cerevisiae) | 5885 | 0.007 | -0.2372 | No |
| 35 | RELA | RELA Entrez, Source | v-rel reticuloendotheliosis viral oncogene homolog A, nuclear factor of kappa light polypeptide gene enhancer in B-cells 3, p65 (avian) | 5892 | 0.007 | -0.2370 | No |
| 36 | SMAD2 | SMAD2 Entrez, Source | SMAD, mothers against DPP homolog 2 (Drosophila) | 6213 | 0.001 | -0.2611 | No |
| 37 | NUP98 | NUP98 Entrez, Source | nucleoporin 98kDa | 6268 | 0.000 | -0.2652 | No |
| 38 | GTF3C2 | GTF3C2 Entrez, Source | general transcription factor IIIC, polypeptide 2, beta 110kDa | 6321 | -0.000 | -0.2691 | No |
| 39 | ZBTB16 | ZBTB16 Entrez, Source | zinc finger and BTB domain containing 16 | 6337 | -0.001 | -0.2701 | No |
| 40 | CPSF3 | CPSF3 Entrez, Source | cleavage and polyadenylation specific factor 3, 73kDa | 6401 | -0.002 | -0.2747 | No |
| 41 | SMARCD2 | SMARCD2 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2 | 6556 | -0.005 | -0.2859 | No |
| 42 | INTS6 | INTS6 Entrez, Source | integrator complex subunit 6 | 6560 | -0.005 | -0.2857 | No |
| 43 | TAF6 | TAF6 Entrez, Source | TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80kDa | 6603 | -0.006 | -0.2884 | No |
| 44 | NFYC | NFYC Entrez, Source | nuclear transcription factor Y, gamma | 6617 | -0.006 | -0.2888 | No |
| 45 | RTCD1 | RTCD1 Entrez, Source | RNA terminal phosphate cyclase domain 1 | 6731 | -0.008 | -0.2966 | No |
| 46 | NKX2-5 | NKX2-5 Entrez, Source | NK2 transcription factor related, locus 5 (Drosophila) | 6915 | -0.011 | -0.3095 | No |
| 47 | SMARCB1 | SMARCB1 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1 | 7003 | -0.012 | -0.3149 | No |
| 48 | TOP1 | TOP1 Entrez, Source | topoisomerase (DNA) I | 7017 | -0.013 | -0.3147 | No |
| 49 | PRM2 | PRM2 Entrez, Source | protamine 2 | 7037 | -0.013 | -0.3149 | No |
| 50 | OGG1 | OGG1 Entrez, Source | 8-oxoguanine DNA glycosylase | 7089 | -0.014 | -0.3175 | No |
| 51 | NFYA | NFYA Entrez, Source | nuclear transcription factor Y, alpha | 7202 | -0.016 | -0.3244 | No |
| 52 | ZNF148 | ZNF148 Entrez, Source | zinc finger protein 148 | 7364 | -0.019 | -0.3348 | No |
| 53 | GATAD2A | GATAD2A Entrez, Source | GATA zinc finger domain containing 2A | 7397 | -0.020 | -0.3354 | No |
| 54 | FOXE3 | FOXE3 Entrez, Source | forkhead box E3 | 7406 | -0.020 | -0.3341 | No |
| 55 | TAF11 | TAF11 Entrez, Source | TAF11 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 28kDa | 7434 | -0.020 | -0.3342 | No |
| 56 | PHB | PHB Entrez, Source | prohibitin | 7736 | -0.026 | -0.3546 | No |
| 57 | GCM1 | GCM1 Entrez, Source | glial cells missing homolog 1 (Drosophila) | 7750 | -0.026 | -0.3531 | No |
| 58 | CHAF1B | CHAF1B Entrez, Source | chromatin assembly factor 1, subunit B (p60) | 7839 | -0.028 | -0.3571 | No |
| 59 | COIL | COIL Entrez, Source | coilin | 7869 | -0.029 | -0.3566 | No |
| 60 | SMAD4 | SMAD4 Entrez, Source | SMAD, mothers against DPP homolog 4 (Drosophila) | 8001 | -0.031 | -0.3636 | No |
| 61 | KPNA2 | KPNA2 Entrez, Source | karyopherin alpha 2 (RAG cohort 1, importin alpha 1) | 8037 | -0.032 | -0.3633 | No |
| 62 | HTATIP | HTATIP Entrez, Source | HIV-1 Tat interacting protein, 60kDa | 8212 | -0.035 | -0.3731 | No |
| 63 | SMARCA4 | SMARCA4 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 | 8251 | -0.036 | -0.3725 | No |
| 64 | ATXN3 | ATXN3 Entrez, Source | ataxin 3 | 8313 | -0.038 | -0.3736 | No |
| 65 | UBE2I | UBE2I Entrez, Source | ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) | 8446 | -0.040 | -0.3798 | No |
| 66 | SLU7 | SLU7 Entrez, Source | - | 8593 | -0.043 | -0.3868 | No |
| 67 | SMARCD3 | SMARCD3 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3 | 8627 | -0.044 | -0.3852 | No |
| 68 | HDAC5 | HDAC5 Entrez, Source | histone deacetylase 5 | 8654 | -0.044 | -0.3830 | No |
| 69 | GIT2 | GIT2 Entrez, Source | G protein-coupled receptor kinase interactor 2 | 8964 | -0.051 | -0.4016 | No |
| 70 | SAP18 | SAP18 Entrez, Source | Sin3A-associated protein, 18kDa | 9025 | -0.052 | -0.4012 | No |
| 71 | THRAP3 | THRAP3 Entrez, Source | thyroid hormone receptor associated protein 3 | 9349 | -0.059 | -0.4201 | No |
| 72 | SYMPK | SYMPK Entrez, Source | symplekin | 9605 | -0.065 | -0.4332 | Yes |
| 73 | HDAC2 | HDAC2 Entrez, Source | histone deacetylase 2 | 9619 | -0.066 | -0.4281 | Yes |
| 74 | HNRPK | HNRPK Entrez, Source | heterogeneous nuclear ribonucleoprotein K | 9627 | -0.066 | -0.4224 | Yes |
| 75 | HDAC6 | HDAC6 Entrez, Source | histone deacetylase 6 | 9766 | -0.070 | -0.4263 | Yes |
| 76 | GTF3C1 | GTF3C1 Entrez, Source | general transcription factor IIIC, polypeptide 1, alpha 220kDa | 9814 | -0.071 | -0.4232 | Yes |
| 77 | BNIP3 | BNIP3 Entrez, Source | BCL2/adenovirus E1B 19kDa interacting protein 3 | 9855 | -0.073 | -0.4194 | Yes |
| 78 | PHF12 | PHF12 Entrez, Source | PHD finger protein 12 | 9978 | -0.076 | -0.4215 | Yes |
| 79 | MPG | MPG Entrez, Source | N-methylpurine-DNA glycosylase | 10047 | -0.078 | -0.4194 | Yes |
| 80 | PTBP1 | PTBP1 Entrez, Source | polypyrimidine tract binding protein 1 | 10089 | -0.079 | -0.4151 | Yes |
| 81 | SP140 | SP140 Entrez, Source | SP140 nuclear body protein | 10141 | -0.080 | -0.4114 | Yes |
| 82 | NUAK2 | NUAK2 Entrez, Source | NUAK family, SNF1-like kinase, 2 | 10275 | -0.084 | -0.4136 | Yes |
| 83 | ERCC3 | ERCC3 Entrez, Source | excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing) | 10351 | -0.086 | -0.4112 | Yes |
| 84 | HES6 | HES6 Entrez, Source | hairy and enhancer of split 6 (Drosophila) | 10379 | -0.087 | -0.4051 | Yes |
| 85 | NCOA6 | NCOA6 Entrez, Source | nuclear receptor coactivator 6 | 10541 | -0.091 | -0.4087 | Yes |
| 86 | PAX8 | PAX8 Entrez, Source | paired box gene 8 | 10584 | -0.093 | -0.4032 | Yes |
| 87 | GTF2H4 | GTF2H4 Entrez, Source | general transcription factor IIH, polypeptide 4, 52kDa | 10727 | -0.098 | -0.4047 | Yes |
| 88 | TAF2 | TAF2 Entrez, Source | TAF2 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 150kDa | 10729 | -0.098 | -0.3956 | Yes |
| 89 | HDAC10 | HDAC10 Entrez, Source | histone deacetylase 10 | 11193 | -0.116 | -0.4198 | Yes |
| 90 | GTF2F1 | GTF2F1 Entrez, Source | general transcription factor IIF, polypeptide 1, 74kDa | 11265 | -0.119 | -0.4140 | Yes |
| 91 | TP53 | TP53 Entrez, Source | tumor protein p53 (Li-Fraumeni syndrome) | 11266 | -0.119 | -0.4028 | Yes |
| 92 | TDG | TDG Entrez, Source | thymine-DNA glycosylase | 11393 | -0.124 | -0.4007 | Yes |
| 93 | POLR3C | POLR3C Entrez, Source | polymerase (RNA) III (DNA directed) polypeptide C (62kD) | 11398 | -0.125 | -0.3893 | Yes |
| 94 | TOP2A | TOP2A Entrez, Source | topoisomerase (DNA) II alpha 170kDa | 11410 | -0.125 | -0.3784 | Yes |
| 95 | PPIG | PPIG Entrez, Source | peptidylprolyl isomerase G (cyclophilin G) | 11519 | -0.130 | -0.3743 | Yes |
| 96 | DKC1 | DKC1 Entrez, Source | dyskeratosis congenita 1, dyskerin | 11541 | -0.131 | -0.3636 | Yes |
| 97 | RUVBL2 | RUVBL2 Entrez, Source | RuvB-like 2 (E. coli) | 11685 | -0.137 | -0.3616 | Yes |
| 98 | MED4 | MED4 Entrez, Source | mediator of RNA polymerase II transcription, subunit 4 homolog (S. cerevisiae) | 11726 | -0.140 | -0.3515 | Yes |
| 99 | CLOCK | CLOCK Entrez, Source | clock homolog (mouse) | 11770 | -0.143 | -0.3414 | Yes |
| 100 | RBM39 | RBM39 Entrez, Source | RNA binding motif protein 39 | 11924 | -0.152 | -0.3388 | Yes |
| 101 | ISG20 | ISG20 Entrez, Source | interferon stimulated exonuclease gene 20kDa | 11943 | -0.153 | -0.3258 | Yes |
| 102 | NUFIP1 | NUFIP1 Entrez, Source | nuclear fragile X mental retardation protein interacting protein 1 | 11965 | -0.155 | -0.3129 | Yes |
| 103 | ACTL6A | ACTL6A Entrez, Source | actin-like 6A | 11977 | -0.156 | -0.2991 | Yes |
| 104 | ARID1B | ARID1B Entrez, Source | AT rich interactive domain 1B (SWI1-like) | 12024 | -0.159 | -0.2877 | Yes |
| 105 | SFRS2 | SFRS2 Entrez, Source | splicing factor, arginine/serine-rich 2 | 12039 | -0.160 | -0.2737 | Yes |
| 106 | NCBP1 | NCBP1 Entrez, Source | nuclear cap binding protein subunit 1, 80kDa | 12145 | -0.168 | -0.2659 | Yes |
| 107 | MKI67IP | MKI67IP Entrez, Source | MKI67 (FHA domain) interacting nucleolar phosphoprotein | 12147 | -0.168 | -0.2503 | Yes |
| 108 | SPTBN4 | SPTBN4 Entrez, Source | spectrin, beta, non-erythrocytic 4 | 12190 | -0.170 | -0.2375 | Yes |
| 109 | FMR1 | FMR1 Entrez, Source | fragile X mental retardation 1 | 12198 | -0.171 | -0.2219 | Yes |
| 110 | NAP1L3 | NAP1L3 Entrez, Source | nucleosome assembly protein 1-like 3 | 12307 | -0.180 | -0.2132 | Yes |
| 111 | FUSIP1 | FUSIP1 Entrez, Source | FUS interacting protein (serine/arginine-rich) 1 | 12534 | -0.203 | -0.2113 | Yes |
| 112 | TFIP11 | TFIP11 Entrez, Source | tuftelin interacting protein 11 | 12637 | -0.216 | -0.1988 | Yes |
| 113 | ARNTL | ARNTL Entrez, Source | aryl hydrocarbon receptor nuclear translocator-like | 12653 | -0.218 | -0.1795 | Yes |
| 114 | DYRK1A | DYRK1A Entrez, Source | dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1A | 12656 | -0.218 | -0.1591 | Yes |
| 115 | RUVBL1 | RUVBL1 Entrez, Source | RuvB-like 1 (E. coli) | 12667 | -0.220 | -0.1393 | Yes |
| 116 | HMGA1 | HMGA1 Entrez, Source | high mobility group AT-hook 1 | 12748 | -0.232 | -0.1235 | Yes |
| 117 | NUP54 | NUP54 Entrez, Source | nucleoporin 54kDa | 13079 | -0.318 | -0.1187 | Yes |
| 118 | MCM7 | MCM7 Entrez, Source | MCM7 minichromosome maintenance deficient 7 (S. cerevisiae) | 13101 | -0.328 | -0.0895 | Yes |
| 119 | XPO1 | XPO1 Entrez, Source | exportin 1 (CRM1 homolog, yeast) | 13111 | -0.334 | -0.0589 | Yes |
| 120 | MRE11A | MRE11A Entrez, Source | MRE11 meiotic recombination 11 homolog A (S. cerevisiae) | 13163 | -0.372 | -0.0279 | Yes |
| 121 | APTX | APTX Entrez, Source | aprataxin | 13232 | -0.441 | 0.0083 | Yes |
