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Table 4 New neoblast genes experimentally validated

From: Digital gene expression approach over multiple RNA-Seq data sets to detect neoblast transcriptional changes in Schmidtea mediterranea

Gene X1 X2 Xin p-val X1-Xin p-val X2-Xin TR TF ED CC OG Accession PubMed
Smed-atf6A (Smed-atfl1) 12.36 0.57 0 2.44e-004 5.00e-001     JX010554 22549959
Smed-ccar1 184.01 79.11 0 1.02e-053 1.65e-024   KM981922  
Smed-dnaJA3 133.75 26.94 10.27 2.65e-028 2.53e-003     KM981923  
Smed-ergic3 66.74 4.87 0 6.78e-021 3.12e-002      KM981924  
Smed-got2 Smed-maspat 106.29 7.17 0.86 1.78e-030 3.12e-002      KM981925  
Smed-gtf2E1 36.25 14.91 0 1.46e-011 3.05e-005     KM981926  
Smed-gtf2F1 25.54 0 0 1.49e-008 1     KM981927  
Smed-hadhB 153.80 12.33 1.71 4.86e-043 5.55e-003      KM981928  
Smed-hnrnpA1/A2B1 341.93 13.76 21.40 3.70e-075 6.75e-002      KM981929  
Smed-leo1 (NBE.6.06A) 377.36 26.66 5.14 3.79e-104 4.69e-005    AY967650 15866156
Smed-lin9 47.51 13.76 2.57 9.25e-012 5.19e-003    KM981930  
Smed-maf 19.50 7.45 0 1.91e-006 7.81e-003    KM981931  
Smed-med7 162.86 11.18 7.70 3.59e-038 1.44e-001      KM981932  
Smed-med27 72.51 14.91 5.14 6.99e-017 1.48e-002      KM981933  
Smed-meis-like 10.99 0 0 4.88e-004 1   KM981934  
Smed-mlx 160.12 0 40.23 1.81e-017 9.09e-013    KM981935  
Smed-ncapD2 84.86 0 0.86 1.11e-024 5.00e-001      KM981936  
Smed-nfx1 Smed-stc 28.29 0.57 0 3.73e-009 5.00e-001    KM981937  
Smed-nf-YA 31.31 1.15 2.57 3.48e-007 2.50e-001 KM981938  
Smed-nf-YB-2 17.03 0 0 7.63e-006 1 KM981939  
Smed-nf-YC 589.38 97.74 142.93 4.54e-064 1.46e-002 KM981940  
Smed-nme1 Smed-nm23H1 603.39 45.00 129.24 4.69e-073 6.54e-010     KM981941  
Smed-nup50 45.32 8.89 0.86 6.54e-013 9.77e-003      KM981942  
Smed-pes1 (Smed-pescadillo-1) 228.23 46.15 18.83 5.45e-046 3.34e-004    JX010566 22549959
Smed-rack1 115.90 30.10 0 1.91e-033 9.31e-010    KM981943  
Smed-ranbp2 Smed-nup358 45.32 0.86 0.86 6.54e-013 5.00e-001      KM981944  
Smed-rbbp4-2 (Smed-rbbp-1) 100.24 0 0 1.08e-028 1     JX010613 22549959
Smed-rbbp4-3 (NBE.6.02C) 254.04 27.52 17.97 7.94e-054 4.01e-002     AY967644 15866156
Smed-rbbp4-4 56.30 6.02 0 1.39e-017 1.56e-002    KM981945  
Smed-rbbp5 43.94 0.57 4.28 6.91e-010 1.56e-001    KM981946  
Smed-rbbp6 64.27 11.18 0 5.42e-020 4.88e-004      KM981947  
Smed-rrM2B (Smed-rnr2-2) 826.40 7.45 13.69 1.07e-111 5.54e-002     JX010501 22549959
Smed-serinc 12.91 0.29 0 1.22E-004 1       KM981948  
Smed-set 936.53 0 63.33 1.70e-100 1.08e-019     KM981949  
Smed-srrt Smed-ars2 249.10 35.54 0 3.75e-073 1.46e-011    KM981950  
Smed-thoc2 184.01 9.75 1.71 6.45e-052 1.61e-002     KM981951  
Smed-tif1A 63.99 5.73 11.13 1.30e-010 9.44e-002   KM981952  
Smed-traf-4 258.16 31.82 0 7.59e-076 2.33e-010     KM981953  
Smed-traf-5 47.24 15.19 0 7.11e-015 3.05e-005     KM981954  
Smed-tsg101 (NBE.2.10C) 319.13 164.82 141.22 4.42e-016 3.90e-001   AY967577 15866156
Smed-tssc1 48.61 0 8.56 3.69e-008 1.95e-003      KM981955  
Smed-tusc3 3.30 0 0 1.25e-001 1     KM981956  
  1. For those genes whose sequence had already been annotated in S. mediterranea—although only a slight or no experimental characterization at all had been carried out with them—former gene name is in parentheses and Pubmed identifier of the original publication is provided. When a gene was traditionally known by a different name from the recommended (see Gene nomenclature section in Methods), a synonym name is shown separated by a double bar. Transcription regulators (TR) modulate gene expression. Transcription factors (TF), in addition, posses specific DNA binding domains. Genes involved in embryogenesis/development (ED) and control of cell cycle (CC) are also noted. Oncogenes (OG) have a human homolog related to oncogenesis. Predicted functional domains for several of the selected transcript candidates are visualized in Figure 3.