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WormBase Tree Display for Expression_cluster: WBPaper00026952:class_B

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Name Class

WBPaper00026952:class_BDescriptionClass B gene expression showed up regulation in lin-14(lf) in L1, no change in lin-4(lf) in L2.
SpeciesCaenorhabditis elegans
AlgorithmRaw data from each experiment were downloaded from the Stanford Microarray Database into Excel files and processed as follows: (i) sort by Spot Flag and discard any rows where the Spot Flag value was nonzero, indicating a bad PCR; (ii) sort by Failed and discard any rows where the Failed value was nonzero, indicating abnormal hybridization; (iii) import into a common file for each type of experiment (i.e., lin-14 or lin-4) the columns from each raw experimental file [RAT2(R/G), which shows a log base 2 transformed ratio of normalized red/green signal for each spot; name of spot (Wormbase designation); chromosome location and description (www.wormbase.org)]; (iv) calculate an average RAT2(R/G) based on the 2 or 3 values (avg; any rows which had only one good experimental value were discarded); (v) calculate a standard deviation (stdev) for the average value; (vi) calculate a t value for each spot by using the formula t = avg*[sqrt(n - 1)]/stdev, where n is the number of experiments for which good data exist, sqrt is square root, and stdev is standard deviation; (vii) sort by absolute t value and discard any rows with a t value below 4.303 (below 95% confidence interval for three experiments) or below 12.706 (below 95% confidence interval for two experiments); (viii) sort by absolute average value and discard any rows with average values below 1.0 (less than twofold change compared to control).
ReferenceWBPaper00026952
Microarray_resultsSMD_B0222.2
SMD_B0238.2
SMD_B0238.5
SMD_B0284.1
SMD_B0432.12
SMD_B0507.6
SMD_B0547.2
SMD_C01A2.1
SMD_C01G5.4
SMD_C01G8.7
SMD_C02A12.2
SMD_C02E7.1
SMD_C02E7.3
SMD_C02E7.5
SMD_C03G6.5
SMD_C04E12.10
SMD_C04F6.1
SMD_C04G6.3
SMD_C05C8.4
SMD_C05C8.5
SMD_C05D10.3
SMD_C05D2.3
SMD_C05D2.5
SMD_C05E11.4
SMD_C05E4.11
SMD_C05E4.9
SMD_C06A5.6
SMD_C06C6.2
SMD_C06E4.6
SMD_C06E4.8
SMD_C07G1.1
SMD_C08B6.5
SMD_C08E3.4
SMD_C08F8.5
SMD_C09B9.2
SMD_C13A2.4
SMD_C13D9.1
SMD_C13D9.3
SMD_C13D9.7
SMD_C13D9.8
SMD_C13G5.2
SMD_C14C6.10
SMD_C14C6.12
SMD_C15B12.2
SMD_C16C4.3
SMD_C16C4.6
SMD_C17B7.5
SMD_C17E4.3
SMD_C17H1.7
SMD_C17H12.5
SMD_C17H12.9
SMD_C18B10.1
SMD_C18C4.2
SMD_C18F10.4
SMD_C23H4.6
SMD_C25D7.2
SMD_C25E10.1
SMD_C33A12.10
SMD_C33A12.16
SMD_C33D9.2
SMD_C33D9.3
SMD_C34C6.7
SMD_C36C5.6
SMD_C41G6.3
SMD_C43F9.4
SMD_C43G2.3
SMD_C43H6.9
SMD_C44B7.6
SMD_C44B9.5
SMD_C44C3.4
SMD_C44H9.4
SMD_C45G7.3
SMD_C45G9.9
SMD_C49G7.7
SMD_C50F7.5
SMD_C50H2.4
SMD_C51E3.4
SMD_C53A5.11
SMD_C54C8.5
SMD_C54C8.6
SMD_C54D10.4
SMD_C54D10.7
SMD_C54F6.10
SMD_C54G10.1
SMD_C55B6.4
SMD_E02C12.12
SMD_E03H12.9
SMD_EEED8.11
SMD_F02E8.4
SMD_F07C4.10
SMD_F09F3.1
SMD_F10G2.1
SMD_F10G2.3
SMD_F10G2.7
SMD_F11A5.7
SMD_F13A7.8
SMD_F14B8.3
SMD_F15H10.6
SMD_F15H10.7
SMD_F16H6.7
SMD_F17A2.12
SMD_F17B5.3
SMD_F17B5.4
SMD_F18A12.6
SMD_F18E2.4
SMD_F18E3.1
SMD_F18E3.4
SMD_F19B10.11
SMD_F19B10.7
SMD_F20G2.4
SMD_F21E9.5
SMD_F22B3.5
SMD_F25B3.2
SMD_F25E2.2
SMD_F26G5.10
SMD_F28A10.4
SMD_F28C12.3
SMD_F28F9.4
SMD_F29C4.6
SMD_F29G9.7
SMD_F30A10.4
SMD_F31A3.1
SMD_F31C3.3
SMD_F31E9.1
SMD_F31F4.14
SMD_F31F4.8
SMD_F32B4.4
SMD_F32B4.8
SMD_F32D8.2
SMD_F32G8.1
SMD_F32H2.8
SMD_F33H1.4
SMD_F33H12.4
SMD_F34D10.2
SMD_F35A5.4
SMD_F35C5.3
SMD_F35E2.7
SMD_F35E2.9
SMD_F35E8.10
SMD_F35E8.13
SMD_F35E8.3
SMD_F35F10.6
SMD_F36G9.12
SMD_F36G9.8
SMD_F36H1.3
SMD_F36H12.16
SMD_F37C12.15
SMD_F38E1.2
SMD_F38H4.4
SMD_F38H4.7
SMD_F39D8.4
SMD_F39E9.7
SMD_F39H11.2
SMD_F40F9.4
SMD_F41E7.3
SMD_F42A8.3
SMD_F42F12.2
SMD_F42H11.1
SMD_F43G6.6
SMD_F44D12.11
SMD_F44F1.1
SMD_F44F1.5
SMD_F44F4.3
SMD_F44F4.6
SMD_F44G3.1
SMD_F44G3.7
SMD_F44G4.7
SMD_F45C12.13
SMD_F45C12.16
SMD_F45C12.8
SMD_F45H11.3
SMD_F46F2.4
SMD_F47B3.8
SMD_F47B8.4
SMD_F47C10.3
SMD_F47C12.4
SMD_F47D2.3
SMD_F47D2.9
SMD_F48B9.3
SMD_F48G7.2
SMD_F49C12.3
SMD_F49H6.5
SMD_F52E10.5
SMD_F52F12.1
SMD_F52H3.6
SMD_F53B2.5
SMD_F53B6.6
SMD_F53F4.4
SMD_F53F4.8
SMD_F53F4.9
SMD_F54D5.1
SMD_F54H5.2
SMD_F55H12.4
SMD_F56B6.1
SMD_F56H6.5
SMD_F57A8.7
SMD_F58B3.6
SMD_F58D2.1
SMD_F58E1.12
SMD_F58E1.13
SMD_F59E11.15
SMD_F59E11.7
SMD_H05L14.2
SMD_H12C20.4
SMD_K02B9.1
SMD_K02D7.3
SMD_K03B8.1
SMD_K03H1.1
SMD_K05F1.3
SMD_K06H6.4
SMD_K07C6.8
SMD_K08E4.5
SMD_K12B6.1
SMD_K12B6.2
SMD_K12B6.5
SMD_K12B6.8
SMD_K12D9.1
SMD_K12D9.4
SMD_K12D9.7
SMD_K12D9.8
SMD_M01D1.9
SMD_M176.5
SMD_R03H4.4
SMD_R04D3.3
SMD_R06B10.1
SMD_R07B1.2
SMD_R07B5.6
SMD_R07C3.4
SMD_R09E10.1
SMD_R11G11.13
SMD_R13D7.10
SMD_R160.3
SMD_T01G5.5
SMD_T01G5.7
SMD_T01G6.5
SMD_T01H10.2
SMD_T01H3.4
SMD_T03E6.3
SMD_T04A11.10
SMD_T05C12.3
SMD_T05H4.15
SMD_T06A1.1
SMD_T06C12.8
SMD_T08G3.7
SMD_T09F5.10
SMD_T09F5.8
SMD_T10C6.3
SMD_T10E10.1
SMD_T10H10.3
SMD_T10H4.3
SMD_T10H4.6
SMD_T10H9.1
SMD_T11A5.4
SMD_T11F9.3
SMD_T12C9.1
SMD_T12C9.3
SMD_T13A10.12
SMD_T13A10.13
SMD_T13A10.6
SMD_T13B5.1
SMD_T13F3.2
SMD_T14B4.3
SMD_T14G12.1
SMD_T15D6.1
SMD_T16H12.3
SMD_T19B10.10
SMD_T19C4.5
SMD_T20B6.1
SMD_T20D4.19
SMD_T21B4.10
SMD_T21B4.5
SMD_T21E8.3
SMD_T21H8.2
SMD_T25B9.6
SMD_T26E4.3
SMD_T28A11.10
SMD_T28A11.19
SMD_T28A11.3
SMD_T28A11.8
SMD_W08A12.4
SMD_W09D6.2
SMD_W09G12.7
SMD_W10D5.1
SMD_Y20C6A.1
SMD_Y32F6A.2
SMD_Y43E12A.3
SMD_Y48E1B.4
SMD_Y51A2A.1
SMD_Y51A2A.7
SMD_Y73C8C.3
SMD_ZC168.2
SMD_ZC196.6
SMD_ZC477.2
SMD_ZK1053.5
SMD_ZK1225.5
SMD_ZK228.1
SMD_ZK328.4
SMD_ZK563.1
SMD_ZK596.2
SMD_ZK617.2
SMD_ZK617.3
SMD_ZK666.5
SMD_ZK666.8
SMD_ZK75.1
SMD_ZK863.5
Gene (322)
Attribute_ofMicroarray_experimentWBPaper00026952:N2b_vs_lin-4b
WBPaper00026952:N2_vs_lin-14(n179ts)
WBPaper00026952:N2c_vs_lin-4c
WBPaper00026952:N2_vs_lin-14(n179ts)_rep2
WBPaper00026952:N2a_vs_lin-4a
RegulationRegulated_by_geneWBGene00003003
WBGene00002993