Q. In cluster analysis of microarray data– If Xi is the log odds value for gene X at time i, then for two genes X and Y and N observations, a similarity score is calculated. S(X,Y) is also known as the Pearson correlation coefficent. Xoffset and Yoffset can be the mean of the observations on X or Y, respectively, in which case is the standard deviation, or else Xoffset and Yoffset can be set to zero when a reference state is used. Which of the following best represents it?

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Q. In cluster analysis of microarray data– A node is created between the _________ scoring pair, and the gene expressed profiles of these two genes are averaged and the joined elements are weighted by the _________ of elements they contain.

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Q. In cluster analysis of microarray data– For n genes, the process is repeated ________ times until a single element remains.

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Q. The hierarchical clustering method generates a similarity score [S(X,Y)] for all gene combinations, places the scores in a matrix, joins those genes that have the highest score, and then continues to join progressively less similar pairs.

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Q. In Self-organizing maps a choice is made of a number of clusters by which to organize the data.

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Q. SVMs (Support vector machines) are a binary classification method to discriminate one set of data points from another.

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Q. In SVMs (Support vector machines) Data points are log-transformed and normalized as in method A, where for N observations of a gene i, the log transform Xi of the expression level Ei and reference level Ri is?

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Q. When two proteins share a considerable degree of sequence identity throughout the sequence alignment, they are least likely to share the same function.

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Q. Other types of evidence for a relationship between two genes are also given that are not dependent in sequence similarity. Which of the following is a wrong statement?

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Q. In Genome-wide prediction of protein functions by a combinatorial method– Each point represents a protein, and branches between proteins indicate a relationship by one of several criteria indicated in the legend.

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Q. Which of the given statement is untrue about functional genomics?

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Q. In case of functional genomics– Two general types of approaches are used—one in which a genetic construct is made that interferes with the expression of a particular gene (and sometimes a set of related genes) and a second in which a large number of random mutations are generated in a population of organisms.

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Q. A genome database may also be interfaced with other types of data, such as clinical data.

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Q. The ultimate step in genome analysis is to collect the information found on gene and protein sequences, alignments, gene function and location, protein families and domains, relationships of genes to those in other organisms, chromosomal rearrangements, and so on, into a comprehensive database.

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Q. In addition to the care needed in organizing genome databases, a great deal of human input is needed to annotate the genome manually with information.

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Q. In Reverse-genetics analysis of gene function– Even though a particular gene may be _____ ortholog of a gene of known function in another organism, that gene may be acquired by a _____ function.

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