R语言 PCpheno包 DudleyPheno()函数中文帮助文档(中英文对照)

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DudleyPheno(PCpheno)
DudleyPheno()所属R语言包：PCpheno

                                        List of fitness defect score generated from Dudley et al 2005
                                         从达德利等人，2005年产生的健身缺损评分名单

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

Dudley et al (2005) create a  collection of gene-deletion mutants to determine genes that contribute to a  particular phenotype in specific environmental conditions. This list is generated from a fitness analysis under 21 different experimental conditions.
达德利等人（2005年）创建一个基因缺失突变体的收集，以确定有助于在特定的环境条件下的特定表型的基因。产生这个名单是从21个不同的实验条件下的健身分析。


用法----------Usage----------


data(DudleyGenelist)
data(DudleyPhenoFull)
data(DudleyPhenoM)
data(DudleySign)



格式----------Format----------

DudleyGenelist is a character vector of length 814 genes. DudleyPhenoFull is a dataframe of 814 genes by 23 elements. The column contains the yeast gene name. The 22 remaining columns are the experimental conditions (see details). The values obtained in the different condition are the fitness defect scores for the 814 genes sensitive to the experimental condition, as defined by Dudley et al (2005). DudleyPhenoM is a 814 by 22 incidence matrix with rownames corresponding to the genes names and columns to an experimental condition. This matrix contains a 1 in the (i,j) position if the i-th gene is sensitive to the experimental condition of the j-th column; it contains a 0 otherwise.
DudleyGenelist是一个长度为814基因的特征向量。 DudleyPhenoFull是814个基因的23个元素dataframe。列包含酵母基因名称。其余22列的实验条件（见详情）。在不同的条件下得到的值是814基因敏感的实验条件下，达德利等人（2005）所界定的健身缺损评分。 DudleyPhenoM是一个对应的基因名称和列的实验条件下与rownames 814 22关联矩阵。此矩阵包含一个1（I，J）的位置，如果是敏感的实验条件下的第j列的第i个基因中，否则它包含了0。




Yname Yeast systematic gene name
Yname系统的酵母基因名称




benomyl 15ug/ml benomyl,microtubule function
微管功能15ug/ml苯菌灵，苯菌灵




CaCl2 0.7M calcium chloride, divalent cation
氯化钙0.7M氯化钙，二价阳离子




CAD 55uM Cadmium, heavy metal
CAD的55uM镉，重金属




Caff 2mg/ml Caffeine
卡福2mg/ml咖啡因




cyclohex 0.18ug/ml cycloheximide, protein synthesis
蛋白质合成0.18ug/ml放线菌酮，环己




DTT unknown
数码地面电视未知




EtOH YPD + 6% Ethanol
乙醇的YPD + 6％乙醇




FeLim iron limited, nutrient limited condition
FeLim铁有限，养分有限的条件




HU 11.4mg/ml Hydroxyurea, DNA replication and repair
胡11.4mg/ml羟基脲，DNA复制和修复




HygroB 50ug/ml hygromycin B, aminoglycosides
HygroB 50ug/ml潮霉素B，氨基糖苷类




lowPO4 Low phosphate, nutrient limited condition
lowPO4低磷酸盐，养分有限的条件




MPA 20ug/ml mycophenolic acid, transcriptional elongation
MPA的的20ug/ml霉酸，转录伸长




NaCl 1.2M sodium chloride, general stress condition
氯化钠1.2M氯化钠，一般应力条件




Paraq 1mM paraquat, oxidative stress
paraq 1MM百草枯，氧化应激




pH3 Low pH, general stress condition
PH3低pH值，一般应力状态




rap 0.1ug/ml rapamycin, protein synthesis
说唱0.1ug/ml雷帕霉素，蛋白质合成




Sorb 1.2M sorbitol, general stress condition
SORB 1.2M山梨醇，一般应力条件




UV 100J/m2 ultra-violet, DNA replication and repair
紫外线100J/m2紫外线，DNA复制和修复




YPGal 2% galactose, carbon source
YPGal 2％半乳糖，碳源




YPGly 3% glycerol, carbon source
YPGly 3％的甘油，碳源




YPLac 2% lactate, carbon source
YPLac 2％乳酸，碳源




YPRaff 2% raffinose, carbon source
YPRaff 2％，棉子糖，碳源

DudleySign is a list of dataframe that summaryzes in which complexes the gene related to the phenotype are found, the size of the complexes and the associated p-value. This is the result of applying a Hypergeometric test (see CoHyperGParams-class for more details) and the complexStatus function.
，DudleySign的dataframe名单，其中复合体的表型相关的基因被发现summaryzes，配合物和相关的p值的大小。这是应用超几何试验（见CoHyperGParams-class更多详情）complexStatus函数的结果。

Dudleyresult is a data.frame that summaryzes the number of sensitive genes per condition, how many of those genes are present in the ScISI interactome and the associated p-value. This is the result of applying a Hypergeometric test (see CoHyperGParams-class for more details) and the complexStatus function.
Dudleyresult是数据框，summaryzes每条件的敏感基因，这些基因中，有多少是在ScISI相互作用组和相关的p值目前。这是应用超几何试验（见CoHyperGParams-class更多详情）complexStatus函数的结果。


作者（S）----------Author(s)----------


N. LeMeur



源----------Source----------

Dudley et al (2005), supplementary information: http://arep.med.harvard.edu/pheno/default.htm
达德利等，补充资料（2005）：http://arep.med.harvard.edu/pheno/default.htm


参考文献----------References----------

Shamir and George McDonald Church. (2005).A global view of pleiotropy and phenotypically derived gene function in yeast. Molecular Systems Biology doi:10.1038/msb4100004   

举例----------Examples----------


data(DudleyPhenoFull)
data(DudleyPhenoM)

转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。


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