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_48h.class.cls #double_gel_8d_versus_double_gel_48h_repos |
| Phenotype | class.cls#double_gel_8d_versus_double_gel_48h_repos |
| Upregulated in class | double_gel_48h |
| GeneSet | NUCLEOPLASM |
| Enrichment Score (ES) | -0.39815035 |
| Normalized Enrichment Score (NES) | -1.611074 |
| Nominal p-value | 0.0 |
| FDR q-value | 0.1317582 |
| FWER p-Value | 1.0 |
| 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 | 808 | 0.169 | -0.0422 | No |
| 2 | PPARGC1A | PPARGC1A Entrez, Source | peroxisome proliferative activated receptor, gamma, coactivator 1, alpha | 1181 | 0.130 | -0.0559 | No |
| 3 | MEN1 | MEN1 Entrez, Source | multiple endocrine neoplasia I | 1194 | 0.128 | -0.0424 | No |
| 4 | EPAS1 | EPAS1 Entrez, Source | endothelial PAS domain protein 1 | 1321 | 0.118 | -0.0387 | No |
| 5 | CIB1 | CIB1 Entrez, Source | calcium and integrin binding 1 (calmyrin) | 1688 | 0.098 | -0.0554 | No |
| 6 | NAP1L2 | NAP1L2 Entrez, Source | nucleosome assembly protein 1-like 2 | 1711 | 0.097 | -0.0462 | No |
| 7 | HDAC7A | HDAC7A Entrez, Source | histone deacetylase 7A | 1959 | 0.087 | -0.0552 | No |
| 8 | SMARCA2 | SMARCA2 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 | 2300 | 0.074 | -0.0726 | No |
| 9 | BNIP3 | BNIP3 Entrez, Source | BCL2/adenovirus E1B 19kDa interacting protein 3 | 2391 | 0.071 | -0.0715 | No |
| 10 | PPP1R9B | PPP1R9B Entrez, Source | protein phosphatase 1, regulatory subunit 9B, spinophilin | 2900 | 0.057 | -0.1035 | No |
| 11 | NCR1 | NCR1 Entrez, Source | natural cytotoxicity triggering receptor 1 | 2994 | 0.055 | -0.1044 | No |
| 12 | GTF3C2 | GTF3C2 Entrez, Source | general transcription factor IIIC, polypeptide 2, beta 110kDa | 3171 | 0.050 | -0.1121 | No |
| 13 | ATXN1 | ATXN1 Entrez, Source | ataxin 1 | 3197 | 0.050 | -0.1084 | No |
| 14 | ELL2 | ELL2 Entrez, Source | elongation factor, RNA polymerase II, 2 | 3352 | 0.046 | -0.1149 | No |
| 15 | CDKN2A | CDKN2A Entrez, Source | cyclin-dependent kinase inhibitor 2A (melanoma, p16, inhibits CDK4) | 3401 | 0.045 | -0.1135 | No |
| 16 | NCOA6 | NCOA6 Entrez, Source | nuclear receptor coactivator 6 | 3527 | 0.042 | -0.1182 | No |
| 17 | SMARCD2 | SMARCD2 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2 | 3566 | 0.041 | -0.1165 | No |
| 18 | SP140 | SP140 Entrez, Source | SP140 nuclear body protein | 3655 | 0.040 | -0.1187 | No |
| 19 | ISG20 | ISG20 Entrez, Source | interferon stimulated exonuclease gene 20kDa | 3732 | 0.038 | -0.1202 | No |
| 20 | HDAC5 | HDAC5 Entrez, Source | histone deacetylase 5 | 3742 | 0.038 | -0.1166 | No |
| 21 | TAF9 | TAF9 Entrez, Source | TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 32kDa | 3757 | 0.037 | -0.1135 | No |
| 22 | HCLS1 | HCLS1 Entrez, Source | hematopoietic cell-specific Lyn substrate 1 | 4075 | 0.031 | -0.1339 | No |
| 23 | MCRS1 | MCRS1 Entrez, Source | microspherule protein 1 | 4309 | 0.027 | -0.1485 | No |
| 24 | SPTBN4 | SPTBN4 Entrez, Source | spectrin, beta, non-erythrocytic 4 | 4432 | 0.025 | -0.1550 | No |
| 25 | 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) | 4483 | 0.024 | -0.1561 | No |
| 26 | CDK9 | CDK9 Entrez, Source | cyclin-dependent kinase 9 (CDC2-related kinase) | 4558 | 0.022 | -0.1592 | No |
| 27 | NFYA | NFYA Entrez, Source | nuclear transcription factor Y, alpha | 4833 | 0.018 | -0.1779 | No |
| 28 | PTF1A | PTF1A Entrez, Source | pancreas specific transcription factor, 1a | 4886 | 0.017 | -0.1799 | No |
| 29 | HDAC3 | HDAC3 Entrez, Source | histone deacetylase 3 | 4967 | 0.016 | -0.1842 | No |
| 30 | ACTB | ACTB Entrez, Source | actin, beta | 5041 | 0.014 | -0.1881 | No |
| 31 | ZBTB16 | ZBTB16 Entrez, Source | zinc finger and BTB domain containing 16 | 5042 | 0.014 | -0.1865 | No |
| 32 | NFYB | NFYB Entrez, Source | nuclear transcription factor Y, beta | 5058 | 0.014 | -0.1861 | No |
| 33 | HTATIP | HTATIP Entrez, Source | HIV-1 Tat interacting protein, 60kDa | 5528 | 0.007 | -0.2208 | No |
| 34 | ZNF148 | ZNF148 Entrez, Source | zinc finger protein 148 | 5916 | 0.001 | -0.2499 | No |
| 35 | TOP1 | TOP1 Entrez, Source | topoisomerase (DNA) I | 6078 | -0.001 | -0.2619 | No |
| 36 | TBP | TBP Entrez, Source | TATA box binding protein | 6398 | -0.006 | -0.2854 | No |
| 37 | SMARCB1 | SMARCB1 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1 | 6408 | -0.006 | -0.2853 | No |
| 38 | SMARCA4 | SMARCA4 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 | 6475 | -0.007 | -0.2895 | No |
| 39 | CHAF1B | CHAF1B Entrez, Source | chromatin assembly factor 1, subunit B (p60) | 6494 | -0.008 | -0.2900 | No |
| 40 | NUP98 | NUP98 Entrez, Source | nucleoporin 98kDa | 6561 | -0.008 | -0.2941 | No |
| 41 | COIL | COIL Entrez, Source | coilin | 6923 | -0.014 | -0.3198 | No |
| 42 | PRM2 | PRM2 Entrez, Source | protamine 2 | 7003 | -0.015 | -0.3241 | No |
| 43 | NAP1L4 | NAP1L4 Entrez, Source | nucleosome assembly protein 1-like 4 | 7012 | -0.015 | -0.3230 | No |
| 44 | ERCC3 | ERCC3 Entrez, Source | excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing) | 7085 | -0.016 | -0.3266 | No |
| 45 | SMAD4 | SMAD4 Entrez, Source | SMAD, mothers against DPP homolog 4 (Drosophila) | 7113 | -0.017 | -0.3267 | No |
| 46 | NFYC | NFYC Entrez, Source | nuclear transcription factor Y, gamma | 7410 | -0.021 | -0.3468 | No |
| 47 | GATAD2A | GATAD2A Entrez, Source | GATA zinc finger domain containing 2A | 7565 | -0.024 | -0.3558 | No |
| 48 | GIT2 | GIT2 Entrez, Source | G protein-coupled receptor kinase interactor 2 | 7717 | -0.026 | -0.3643 | No |
| 49 | TAF6 | TAF6 Entrez, Source | TAF6 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 80kDa | 7744 | -0.027 | -0.3633 | No |
| 50 | HIF1A | HIF1A Entrez, Source | hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) | 7751 | -0.027 | -0.3607 | No |
| 51 | KPNA2 | KPNA2 Entrez, Source | karyopherin alpha 2 (RAG cohort 1, importin alpha 1) | 7811 | -0.028 | -0.3621 | No |
| 52 | SUB1 | SUB1 Entrez, Source | SUB1 homolog (S. cerevisiae) | 7882 | -0.029 | -0.3642 | No |
| 53 | PPARGC1B | PPARGC1B Entrez, Source | peroxisome proliferative activated receptor, gamma, coactivator 1, beta | 7905 | -0.029 | -0.3626 | No |
| 54 | IKBKAP | IKBKAP Entrez, Source | inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase complex-associated protein | 7916 | -0.029 | -0.3601 | No |
| 55 | SMARCD3 | SMARCD3 Entrez, Source | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3 | 7948 | -0.030 | -0.3591 | No |
| 56 | RTCD1 | RTCD1 Entrez, Source | RNA terminal phosphate cyclase domain 1 | 8083 | -0.032 | -0.3656 | No |
| 57 | PHF12 | PHF12 Entrez, Source | PHD finger protein 12 | 8193 | -0.034 | -0.3701 | No |
| 58 | HDAC10 | HDAC10 Entrez, Source | histone deacetylase 10 | 8278 | -0.035 | -0.3724 | No |
| 59 | PITX2 | PITX2 Entrez, Source | paired-like homeodomain transcription factor 2 | 8349 | -0.037 | -0.3736 | No |
| 60 | CPSF3 | CPSF3 Entrez, Source | cleavage and polyadenylation specific factor 3, 73kDa | 8375 | -0.037 | -0.3714 | No |
| 61 | SMAD2 | SMAD2 Entrez, Source | SMAD, mothers against DPP homolog 2 (Drosophila) | 8430 | -0.038 | -0.3713 | No |
| 62 | NUDT21 | NUDT21 Entrez, Source | nudix (nucleoside diphosphate linked moiety X)-type motif 21 | 8466 | -0.038 | -0.3696 | No |
| 63 | OGG1 | OGG1 Entrez, Source | 8-oxoguanine DNA glycosylase | 8478 | -0.039 | -0.3661 | No |
| 64 | THRAP3 | THRAP3 Entrez, Source | thyroid hormone receptor associated protein 3 | 8530 | -0.039 | -0.3656 | No |
| 65 | TAF11 | TAF11 Entrez, Source | TAF11 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 28kDa | 8562 | -0.040 | -0.3635 | No |
| 66 | FOXE3 | FOXE3 Entrez, Source | forkhead box E3 | 8571 | -0.040 | -0.3596 | No |
| 67 | SAP18 | SAP18 Entrez, Source | Sin3A-associated protein, 18kDa | 8573 | -0.040 | -0.3552 | No |
| 68 | UBE2I | UBE2I Entrez, Source | ubiquitin-conjugating enzyme E2I (UBC9 homolog, yeast) | 8725 | -0.043 | -0.3618 | No |
| 69 | CHEK2 | CHEK2 Entrez, Source | CHK2 checkpoint homolog (S. pombe) | 8735 | -0.043 | -0.3577 | No |
| 70 | INTS6 | INTS6 Entrez, Source | integrator complex subunit 6 | 8753 | -0.043 | -0.3542 | No |
| 71 | SLU7 | SLU7 Entrez, Source | - | 8831 | -0.044 | -0.3551 | No |
| 72 | RB1 | RB1 Entrez, Source | retinoblastoma 1 (including osteosarcoma) | 9017 | -0.048 | -0.3637 | No |
| 73 | HDAC6 | HDAC6 Entrez, Source | histone deacetylase 6 | 9263 | -0.052 | -0.3764 | No |
| 74 | PAX8 | PAX8 Entrez, Source | paired box gene 8 | 9509 | -0.056 | -0.3887 | No |
| 75 | PHB | PHB Entrez, Source | prohibitin | 9567 | -0.057 | -0.3866 | No |
| 76 | GCM1 | GCM1 Entrez, Source | glial cells missing homolog 1 (Drosophila) | 9613 | -0.058 | -0.3835 | No |
| 77 | XRCC6 | XRCC6 Entrez, Source | X-ray repair complementing defective repair in Chinese hamster cells 6 (Ku autoantigen, 70kDa) | 9780 | -0.062 | -0.3892 | No |
| 78 | GEMIN6 | GEMIN6 Entrez, Source | gem (nuclear organelle) associated protein 6 | 9841 | -0.063 | -0.3867 | No |
| 79 | NKX2-5 | NKX2-5 Entrez, Source | NK2 transcription factor related, locus 5 (Drosophila) | 9922 | -0.065 | -0.3855 | No |
| 80 | HMGA1 | HMGA1 Entrez, Source | high mobility group AT-hook 1 | 9950 | -0.065 | -0.3802 | No |
| 81 | PTBP1 | PTBP1 Entrez, Source | polypyrimidine tract binding protein 1 | 10104 | -0.068 | -0.3841 | No |
| 82 | SYMPK | SYMPK Entrez, Source | symplekin | 10270 | -0.072 | -0.3885 | No |
| 83 | NAP1L1 | NAP1L1 Entrez, Source | nucleosome assembly protein 1-like 1 | 10281 | -0.072 | -0.3812 | No |
| 84 | MPG | MPG Entrez, Source | N-methylpurine-DNA glycosylase | 10506 | -0.078 | -0.3894 | Yes |
| 85 | HES6 | HES6 Entrez, Source | hairy and enhancer of split 6 (Drosophila) | 10589 | -0.080 | -0.3867 | Yes |
| 86 | SFRS2 | SFRS2 Entrez, Source | splicing factor, arginine/serine-rich 2 | 10691 | -0.082 | -0.3851 | Yes |
| 87 | HNRPK | HNRPK Entrez, Source | heterogeneous nuclear ribonucleoprotein K | 10815 | -0.086 | -0.3848 | Yes |
| 88 | CLOCK | CLOCK Entrez, Source | clock homolog (mouse) | 10868 | -0.087 | -0.3790 | Yes |
| 89 | GTF2F1 | GTF2F1 Entrez, Source | general transcription factor IIF, polypeptide 1, 74kDa | 10980 | -0.090 | -0.3773 | Yes |
| 90 | TOP2A | TOP2A Entrez, Source | topoisomerase (DNA) II alpha 170kDa | 11066 | -0.092 | -0.3734 | Yes |
| 91 | TFIP11 | TFIP11 Entrez, Source | tuftelin interacting protein 11 | 11088 | -0.093 | -0.3646 | Yes |
| 92 | GTF3C1 | GTF3C1 Entrez, Source | general transcription factor IIIC, polypeptide 1, alpha 220kDa | 11181 | -0.095 | -0.3609 | Yes |
| 93 | HDAC2 | HDAC2 Entrez, Source | histone deacetylase 2 | 11182 | -0.095 | -0.3503 | Yes |
| 94 | RBM39 | RBM39 Entrez, Source | RNA binding motif protein 39 | 11211 | -0.096 | -0.3416 | Yes |
| 95 | DKC1 | DKC1 Entrez, Source | dyskeratosis congenita 1, dyskerin | 11229 | -0.096 | -0.3321 | Yes |
| 96 | ARID1B | ARID1B Entrez, Source | AT rich interactive domain 1B (SWI1-like) | 11241 | -0.097 | -0.3221 | Yes |
| 97 | TP53 | TP53 Entrez, Source | tumor protein p53 (Li-Fraumeni syndrome) | 11337 | -0.100 | -0.3181 | Yes |
| 98 | MED4 | MED4 Entrez, Source | mediator of RNA polymerase II transcription, subunit 4 homolog (S. cerevisiae) | 11379 | -0.101 | -0.3099 | Yes |
| 99 | ATXN3 | ATXN3 Entrez, Source | ataxin 3 | 11788 | -0.116 | -0.3277 | Yes |
| 100 | ACTL6A | ACTL6A Entrez, Source | actin-like 6A | 11816 | -0.118 | -0.3166 | Yes |
| 101 | FMR1 | FMR1 Entrez, Source | fragile X mental retardation 1 | 11863 | -0.120 | -0.3067 | Yes |
| 102 | NAP1L3 | NAP1L3 Entrez, Source | nucleosome assembly protein 1-like 3 | 11966 | -0.125 | -0.3004 | Yes |
| 103 | TAF2 | TAF2 Entrez, Source | TAF2 RNA polymerase II, TATA box binding protein (TBP)-associated factor, 150kDa | 12029 | -0.128 | -0.2908 | Yes |
| 104 | POLR3C | POLR3C Entrez, Source | polymerase (RNA) III (DNA directed) polypeptide C (62kD) | 12038 | -0.128 | -0.2770 | Yes |
| 105 | GTF2H4 | GTF2H4 Entrez, Source | general transcription factor IIH, polypeptide 4, 52kDa | 12050 | -0.129 | -0.2635 | Yes |
| 106 | MKI67IP | MKI67IP Entrez, Source | MKI67 (FHA domain) interacting nucleolar phosphoprotein | 12289 | -0.142 | -0.2656 | Yes |
| 107 | NUFIP1 | NUFIP1 Entrez, Source | nuclear fragile X mental retardation protein interacting protein 1 | 12295 | -0.142 | -0.2501 | Yes |
| 108 | RUVBL2 | RUVBL2 Entrez, Source | RuvB-like 2 (E. coli) | 12316 | -0.144 | -0.2355 | Yes |
| 109 | NCBP1 | NCBP1 Entrez, Source | nuclear cap binding protein subunit 1, 80kDa | 12406 | -0.149 | -0.2256 | Yes |
| 110 | PPIG | PPIG Entrez, Source | peptidylprolyl isomerase G (cyclophilin G) | 12641 | -0.167 | -0.2245 | Yes |
| 111 | NUAK2 | NUAK2 Entrez, Source | NUAK family, SNF1-like kinase, 2 | 12649 | -0.168 | -0.2062 | Yes |
| 112 | DYRK1A | DYRK1A Entrez, Source | dual-specificity tyrosine-(Y)-phosphorylation regulated kinase 1A | 12773 | -0.181 | -0.1953 | Yes |
| 113 | TDG | TDG Entrez, Source | thymine-DNA glycosylase | 12893 | -0.199 | -0.1820 | Yes |
| 114 | FUSIP1 | FUSIP1 Entrez, Source | FUS interacting protein (serine/arginine-rich) 1 | 12913 | -0.201 | -0.1609 | Yes |
| 115 | XPO1 | XPO1 Entrez, Source | exportin 1 (CRM1 homolog, yeast) | 12994 | -0.216 | -0.1427 | Yes |
| 116 | RUVBL1 | RUVBL1 Entrez, Source | RuvB-like 1 (E. coli) | 12996 | -0.217 | -0.1186 | Yes |
| 117 | MCM7 | MCM7 Entrez, Source | MCM7 minichromosome maintenance deficient 7 (S. cerevisiae) | 13021 | -0.223 | -0.0954 | Yes |
| 118 | NUP54 | NUP54 Entrez, Source | nucleoporin 54kDa | 13023 | -0.224 | -0.0704 | Yes |
| 119 | APTX | APTX Entrez, Source | aprataxin | 13079 | -0.242 | -0.0475 | Yes |
| 120 | ARNTL | ARNTL Entrez, Source | aryl hydrocarbon receptor nuclear translocator-like | 13133 | -0.262 | -0.0222 | Yes |
| 121 | MRE11A | MRE11A Entrez, Source | MRE11 meiotic recombination 11 homolog A (S. cerevisiae) | 13244 | -0.339 | 0.0074 | Yes |
