WormBase Tree Display for Expression_cluster: WBPaper00041002:HQ_3d_0.2mM_Down

WBPaper00041002:HQ_3d_0.2mM_Down Description: Gene significantly down-regulated by treatment with 0.2mM of HuminFeed Hydroquinone until young adult stage (3 days), with a minimum fold change in gene expression of 0.8.
  Species: Caenorhabditis elegans
  Algorithm: For selection of DEGs, an unpaired t -test was performed followed by a significance analysis of microarray (SAM) test including a calculation that estimates the false discovery rate (FDR). FDR, reducing on the one hand type I errors for null associations, was set to a non-stringent level of <12.5%, mainly to guard from an increase of type II error and also based on findings by Levine et al. (2011), which described 12.5% as most acceptable optimum level of FDR, representing the 90th percentile of the normal distribution curve. DEGs exceeding a fold change of 1.25 were further analyzed with respect to their functional clustering. This fold-cut-off was chosen to allow an interpretation that is biologically meaningful, akin to the notion that data of sound technical and experimental quality which returns strong, statistically significant, absolute signal intensities is sufficiently robust to justify a fold-cut-off of >1.2. This analysis was conducted using the functional annotation clustering tool of the Database for Annotation, Visualization, and Integrated Discovery (DAVID; Huang et al., 2007).
  Reference: WBPaper00041002
  Microarray_results: 173618_s_at Fold Change: 0.8, FDR P-value:0.105
    176572_at Fold Change: 0.8, FDR P-value:0.056
    176800_s_at Fold Change: 0.8, FDR P-value:0.056
    184227_at Fold Change: 0.8, FDR P-value:0.056
    186026_at Fold Change: 0.8, FDR P-value:0.056
    187956_at Fold Change: 0.8, FDR P-value:0.056
    188001_s_at Fold Change: 0.8, FDR P-value:0.056
    190533_s_at Fold Change: 0.8, FDR P-value:0.056
    191843_s_at Fold Change: 0.8, FDR P-value:0.056
    192272_at Fold Change: 0.8, FDR P-value:0.056
    192535_s_at Fold Change: 0.8, FDR P-value:0.056
    193873_at Fold Change: 0.8, FDR P-value:0.056
    194151_x_at Fold Change: 0.8, FDR P-value:0.056
    172031_x_at Fold Change: 0.7, FDR P-value:0.056
    172845_x_at Fold Change: 0.7, FDR P-value:0.056
    173556_s_at Fold Change: 0.7, FDR P-value:0.056
    173806_s_at Fold Change: 0.7, FDR P-value:0.056
    175951_s_at Fold Change: 0.7, FDR P-value:0.056
    176489_at Fold Change: 0.7, FDR P-value:0.105
    176565_s_at Fold Change: 0.7, FDR P-value:0.056
    181251_at Fold Change: 0.7, FDR P-value:0.056
    181381_at Fold Change: 0.7, FDR P-value:0.056
    181798_at Fold Change: 0.7, FDR P-value:0.056
    185943_at Fold Change: 0.7, FDR P-value:0.105
    186636_s_at Fold Change: 0.7, FDR P-value:0.056
    187277_s_at Fold Change: 0.7, FDR P-value:0.056
    187675_s_at Fold Change: 0.7, FDR P-value:0.056
    188143_at Fold Change: 0.7, FDR P-value:0.056
    188449_s_at Fold Change: 0.7, FDR P-value:0.105
    188769_at Fold Change: 0.7, FDR P-value:0.056
    188879_s_at Fold Change: 0.7, FDR P-value:0.056
    189259_s_at Fold Change: 0.7, FDR P-value:0.056
    189283_s_at Fold Change: 0.7, FDR P-value:0.105
    190444_s_at Fold Change: 0.7, FDR P-value:0.056
    190680_s_at Fold Change: 0.7, FDR P-value:0.105
    190813_at Fold Change: 0.7, FDR P-value:0.056
    191014_s_at Fold Change: 0.7, FDR P-value:0.105
    191654_at Fold Change: 0.7, FDR P-value:0.105
    191958_at Fold Change: 0.7, FDR P-value:0.056
    191997_s_at Fold Change: 0.7, FDR P-value:0.056
    192200_at Fold Change: 0.7, FDR P-value:0.056
    192314_s_at Fold Change: 0.7, FDR P-value:0.056
    193122_at Fold Change: 0.7, FDR P-value:0.056
    193362_at Fold Change: 0.7, FDR P-value:0.105
    194083_s_at Fold Change: 0.7, FDR P-value:0.056
    180768_at Fold Change: 0.6, FDR P-value:N.A.
    175896_at Fold Change: 0.6, FDR P-value:N.A.
    190457_s_at Fold Change: 0.6, FDR P-value:N.A.
    192987_at Fold Change: 0.6, FDR P-value:N.A.
    193400_s_at Fold Change: 0.6, FDR P-value:N.A.
    179937_s_at Fold Change: 0.6, FDR P-value:N.A.
    192417_at Fold Change: 0.6, FDR P-value:N.A.
    184707_s_at Fold Change: 0.6, FDR P-value:N.A.
    190834_at Fold Change: 0.6, FDR P-value:N.A.
    185928_s_at Fold Change: 0.6, FDR P-value:0.056
    173451_s_at Fold Change: 0.6, FDR P-value:0.056
    188777_s_at Fold Change: 0.6, FDR P-value:0.056
    175239_at Fold Change: 0.6, FDR P-value:0.056
    187658_at Fold Change: 0.6, FDR P-value:0.105
    179978_at Fold Change: 0.6, FDR P-value:0.105
    186533_s_at Fold Change: 0.6, FDR P-value:0.056
    187933_s_at Fold Change: 0.6, FDR P-value:0.056
    188462_at Fold Change: 0.6, FDR P-value:0.056
    188162_at Fold Change: 0.5, FDR P-value:N.A.
    192876_at Fold Change: 0.5, FDR P-value:0.056
    172109_x_at Fold Change: 0.5, FDR P-value:0.056
    187618_at Fold Change: 0.5, FDR P-value:0.056
    179986_at Fold Change: 0.5, FDR P-value:0.056
    182248_at Fold Change: 0.5, FDR P-value:0.056
    179551_at Fold Change: 0.5, FDR P-value:0.056
    182269_at Fold Change: 0.5, FDR P-value:0.056
    192644_at Fold Change: 0.5, FDR P-value:0.056
    187914_s_at Fold Change: 0.5, FDR P-value:0.105
    185572_at Fold Change: 0.5, FDR P-value:0.056
    189103_at Fold Change: 0.5, FDR P-value:0.056
    190664_s_at Fold Change: 0.5, FDR P-value:0.056
    179695_at Fold Change: 0.5, FDR P-value:0.105
    190748_at Fold Change: 0.5, FDR P-value:0.056
    189157_at Fold Change: 0.4, FDR P-value:0.105
    186513_at Fold Change: 0.4, FDR P-value:0.056
    188699_s_at Fold Change: 0.4, FDR P-value:0.056
    184206_at Fold Change: 0.4, FDR P-value:0.056
    193593_s_at Fold Change: 0.3, FDR P-value:0.056
    193805_at Fold Change: 0.2, FDR P-value:0.056
    178257_at Fold Change: 0.2, FDR P-value:0.056
  Gene: WBGene00020464
    WBGene00002986
    WBGene00021986
    WBGene00012935
    WBGene00004377
    WBGene00004319
    WBGene00001874
    WBGene00000196
    WBGene00000836
    WBGene00001210
    WBGene00020581
    WBGene00012803
    WBGene00003474
    WBGene00001340
    WBGene00019544
    WBGene00015512
    WBGene00303021
    WBGene00016203
    WBGene00004166
    WBGene00004367
    WBGene00019747
    WBGene00020172
    WBGene00016120
    WBGene00019002
    WBGene00007980
    WBGene00017774
    WBGene00000585
    WBGene00004824
    WBGene00004889
    WBGene00016391
    WBGene00008805
    WBGene00004061
    WBGene00007362
    WBGene00011503
    WBGene00000146
    WBGene00017546
    WBGene00011318
    WBGene00004188
    WBGene00003218
    WBGene00012236
    WBGene00006510
    WBGene00011000
    WBGene00010502
    WBGene00000289
    WBGene00012019
    WBGene00018184
    WBGene00001565
    WBGene00003219
    WBGene00000530
    WBGene00004980
    WBGene00004130
    WBGene00018488
    WBGene00007872
    WBGene00000133
    WBGene00004043
    WBGene00001632
    WBGene00012128
    WBGene00017501
    WBGene00015484
    WBGene00012714
    WBGene00021377
    WBGene00000961
    WBGene00000222
    WBGene00015660
    WBGene00004304
    WBGene00021470
    WBGene00001793
    WBGene00014113
    WBGene00004147
    WBGene00009290
    WBGene00012117
    WBGene00002010
    WBGene00004929
    WBGene00013668
    WBGene00000897
    WBGene00000478
    WBGene00009429
    WBGene00013919
    WBGene00001582
    WBGene00021502
    WBGene00022278
    WBGene00012845
    WBGene00001196
    WBGene00001595
    WBGene00010731
  Attribute_of: Microarray_experiment: WBPaper00041002:HF_3d_control_rep1
      WBPaper00041002:HF_3d_control_rep2
      WBPaper00041002:HF_3d_control_rep3
      WBPaper00041002:HF_3d_0.2_rep1
      WBPaper00041002:HF_3d_0.2_rep2
      WBPaper00041002:HF_3d_0.2_rep3
      WBPaper00041002:HF_3d_2.0_rep1
      WBPaper00041002:HF_3d_2.0_rep2
      WBPaper00041002:HF_3d_2.0_rep3
      WBPaper00041002:HF_11d_control_rep1
      WBPaper00041002:HF_11d_control_rep2
      WBPaper00041002:HF_11d_control_rep3
      WBPaper00041002:HF_11d_0.2_rep1
      WBPaper00041002:HF_11d_0.2_rep2
      WBPaper00041002:HF_11d_0.2_rep3
      WBPaper00041002:HF_11d_2.0_rep1
      WBPaper00041002:HF_11d_2.0_rep2
      WBPaper00041002:HF_11d_2.0_rep3
      WBPaper00041002:HFHQ_3d_control_rep1
      WBPaper00041002:HFHQ_3d_control_rep2
      WBPaper00041002:HFHQ_3d_control_rep3
      WBPaper00041002:HFHQ_3d_0.2_rep1
      WBPaper00041002:HFHQ_3d_0.2_rep2
      WBPaper00041002:HFHQ_3d_0.2_rep3
      WBPaper00041002:HFHQ_3d_2.0_rep1
      WBPaper00041002:HFHQ_3d_2.0_rep2
      WBPaper00041002:HFHQ_3d_2.0_rep3
  Regulation: Regulated_by_treatment: Treatment with 0.2mM of HuminFeed Hydroquinone until young adult stage (3 days).
    Regulated_by_molecule: WBMol:00002927
  Associated_with: Life_stage: WBls:0000057