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Table 1 Top differentially expressed genes in the overlap between all treatments.

From: Epidermal growth factor (EGF) withdrawal masks gene expression differences in the study of pituitary adenylate cyclase-activating polypeptide (PACAP) activation of primary neural stem cell proliferation

Unigene ID Gene ID GeneName Avg M Stdev M Avg B Stdev B
Mm.305535 69719 Carbamoyl-phosphate synthetase 2 4.53 0.26 53.33 4.34
Mm.1239 14580 Glial fibrillary acidic protein 4.47 0.39 69.36 3.97
Mm.252063 17196 Myelin basic protein 3.84 0.57 47.80 7.00
Mm.200608 12759 Clusterin 3.72 0.54 60.76 7.92
Mm.240850 76960 Breast carcinoma amplified sequence 1 3.72 0.17 46.89 1.30
Mm.291129 70877 RIKEN cDNA 4921517J23 gene 3.68 0.44 49.64 6.06
Mm.1268 18823 Proteolipid protein (myelin) 1 3.64 0.49 51.72 4.02
Mm.305152 11816 Apolipoprotein E 3.62 0.46 45.79 11.39
Mm.334994 53867 Procollagen. type V. alpha 3 3.61 0.45 49.05 8.48
Mm.272443 64383 Sirtuin 2 3.33 0.34 72.98 3.98
Mm.7420 22153 Tubulin. beta 4 3.13 0.38 53.65 4.65
Mm.39053 71770 Adaptor-related protein complex 2. beta 1 subunit 2.92 0.61 32.53 10.40
Mm.228362 NA Transcribed locus 2.69 0.15 39.82 3.13
Mm.358573 11858 Ras homolog gene family. member N 2.68 0.39 52.12 7.88
Mm.276739 20665 SRY-box containing gene 10 2.65 0.34 33.25 1.34
Mm.241355 17136 Myelin-associated glycoprotein 2.57 0.59 32.28 6.80
Mm.278672 14810 Glutamate receptor. ionotropic. NMDA1 (zeta 1) 2.56 0.52 35.15 7.11
Mm.260601 242521 Kelch-like 9 (Drosophila) 2.54 0.41 44.19 9.26
Mm.192991 17748 Metallothionein 1 2.47 0.54 21.61 5.08
Mm.37199 14862 Glutathione S-transferase. mu 1 2.44 0.16 38.61 2.15
Mm.41580 69908 RAB3B. member RAS oncogene family -3.55 0.31 47.83 4.75
Mm.290563 12615 Centromere autoantigen A -3.14 0.16 49.02 3.58
NA NA GenBank ID: CX204578 -3.09 0.34 34.48 2.55
NA NA GenBank ID: CX207566 -2.99 0.27 51.46 6.04
Mm.273049 12443 Cyclin D1 -2.89 0.33 44.78 3.46
Mm.289747 107995 Cell division cycle 20 homolog (S. cerevisiae) -2.68 0.15 55.41 5.67
Mm.285723 14793 Cell division cycle associated 3 -2.65 0.08 42.97 0.95
Mm.24337 52033 PDZ binding kinase -2.58 0.12 40.31 2.70
Mm.29254 16009 Insulin-like growth factor binding protein 3 -2.49 0.29 41.37 3.97
Mm.233799 16010 Insulin-like growth factor binding protein 4 -2.46 0.31 23.86 5.98
Mm.16525 18817 Polo-like kinase 1 (Drosophila) -2.43 0.12 26.12 1.92
Mm.28038 52276 Cell division cycle associated 8 -2.39 0.12 30.79 5.44
Mm.4857 12323 Calcium/calmodulin-dependent protein kinase II. beta -2.38 0.49 42.14 5.06
Mm.335368 NA CDNA. clone:Y2G0133B03:ENSEMBL -2.35 0.25 50.92 4.35
NA NA GenBank ID: CX206925 -2.32 0.13 28.39 1.66
Mm.271711 21346 Transgelin 2 -2.25 0.12 38.33 1.70
Mm.4237 21973 Topoisomerase (DNA) II alpha -2.14 0.12 46.22 2.01
Mm.1408 11535 Adrenomedullin -2.07 0.17 26.68 5.70
Mm.37802 69544 WD repeat domain 5B -2.03 0.10 59.04 2.30
Mm.35389 13063 Cytochrome c. somatic -2.02 0.12 51.69 2.15
  1. The top of the table shows genes that are up-regulated in the treated (EGF withdrawn) samples, compared to the undifferentiated neurospheres (NS) (positive M-values). The lower half of the table shows genes that are up-regulated in the NS sample (negative M-values). Average M- and B-values for all comparisons (NS vs. PACAP, NS vs. Prol Cont and NS vs. Diff Cont) are shown, together with their standard deviations. All genes have a p-value < 0.0001, calculated by empirical Bayes moderated t-test and a Holm adjustment for multiple testing.