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?

Xj = ( frac{Log (E_j/R_i)}{ sqrt{ sum_{j=1,N} Log_z (E_j/R_j)}} )

Xi = ( frac{Log (E_i/R_i)}{ sqrt{ sum_{j=1,N} Log_{z-2} (E_j/R_j)}} )

Xj = ( frac{Log (E_j/R_i)}{ sqrt{ sum_{j=1,N} Log_z (E_j/R_j)}} )

Xi = ( frac{Log (E_i/R_i)}{ sqrt{ sum_{j=1,(N-1)} Log_z (E_j/R_j)}} )

Xi = ( frac{Log (E_i/R_i)}{ sqrt{ sum_{j=1,N} Log_z (E_j/R_j)}} )

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?

S(X,Y) = ( frac{1}{N-1} ) i=1,N . (Xi + Xoffset) (Yi + Yoffset)/ xQY

S(X,Y) = ( frac{1}{N-2} ) i=1,N . (Xi Xoffset) (Yi + Yoffset)/ xQY

S(X,Y) = ( frac{1}{N} ) i=1,N . (Xi Xoffset) (Yi Yoffset)/ xQY

S(X,Y) = ( frac{1}{N-1} ) i=1,N . (Xi + Xoffset) (Yi + Yoffset)/ xQY

S(X,Y) = ( frac{1}{N} ) i=1,N+2 . (Xi + Xoffset) (Yi Yoffset)/ xQY

Which of the given statements is incorrect about Microarray Analysis?

The proteins are first separated in a column on the basis of size and then across a second dimension on a slab on the basis of charge

It is designed to detect global changes in transcription in a genome

It provides information about the levels of protein products of the genes

The proteins are first separated in a column on the basis of size and then across a second dimension on a slab on the basis of charge

Labeled protein samples may also be extracted from treated cells and separated by two-dimensional gel electrophoresis

8 + Mcqs in Global Gene Regulation in Bioinformatics Page 1 McqOptions

1.	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 X_i of the expression level E_i and reference level R_i is?
A.	X<sub>i</sub> = ( frac{Log (E_i/R_i)}{ sqrt{ sum_{j=1,N} Log_{z-2} (E_j/R_j)}} )
B.	X<sub>j</sub> = ( frac{Log (E_j/R_i)}{ sqrt{ sum_{j=1,N} Log_z (E_j/R_j)}} )
C.	X<sub>i</sub> = ( frac{Log (E_i/R_i)}{ sqrt{ sum_{j=1,(N-1)} Log_z (E_j/R_j)}} )
D.	X<sub>i</sub> = ( frac{Log (E_i/R_i)}{ sqrt{ sum_{j=1,N} Log_z (E_j/R_j)}} )
Answer» B. X<sub>j</sub> = ( frac{Log (E_j/R_i)}{ sqrt{ sum_{j=1,N} Log_z (E_j/R_j)}} )

Discussion

2.	SVMs (Support vector machines) are a binary classification method to discriminate one set of data points from another.
A.	True
B.	False
Answer» B. False

Discussion

3.	In Self-organizing maps a choice is made of a number of clusters by which to organize the data.
A.	True
B.	False
Answer» B. False

Discussion

4.	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.
A.	True
B.	False
Answer» B. False

Discussion

5.	In cluster analysis of microarray data For n genes, the process is repeated ________ times until a single element remains.
A.	n<sup>2</sup>
B.	n
C.	n<sup>-1</sup>
D.	n<sup>-4</sup>
Answer» D. n<sup>-4</sup>

Discussion

6.	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.
A.	lowest, frequency
B.	average, sequence
C.	lowest, number
D.	highest, number
Answer» E.

Discussion

7.	In cluster analysis of microarray data If X_i 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. X_offset and Y_offset can be the mean of the observations on X or Y, respectively, in which case is the standard deviation, or else X_offset and Y_offset can be set to zero when a reference state is used. Which of the following best represents it?
A.	S(X,Y) = ( frac{1}{N-2} ) <sub>i=1,N</sub> . (X<sub>i</sub> X<sub>offset</sub>) (Y<sub>i</sub> + Y<sub>offset</sub>)/ <sub>x</sub>Q<sub>Y</sub>
B.	S(X,Y) = ( frac{1}{N} ) <sub>i=1,N</sub> . (X<sub>i</sub> X<sub>offset</sub>) (Y<sub>i</sub> Y<sub>offset</sub>)/ <sub>x</sub>Q<sub>Y</sub>
C.	S(X,Y) = ( frac{1}{N-1} ) <sub>i=1,N</sub> . (X<sub>i</sub> + X<sub>offset</sub>) (Y<sub>i</sub> + Y<sub>offset</sub>)/ <sub>x</sub>Q<sub>Y</sub>
D.	S(X,Y) = ( frac{1}{N} ) <sub>i=1,N+2</sub> . (X<sub>i</sub> + X<sub>offset</sub>) (Y<sub>i</sub> Y<sub>offset</sub>)/ <sub>x</sub>Q<sub>Y</sub>
Answer» C. S(X,Y) = ( frac{1}{N-1} ) <sub>i=1,N</sub> . (X<sub>i</sub> + X<sub>offset</sub>) (Y<sub>i</sub> + Y<sub>offset</sub>)/ <sub>x</sub>Q<sub>Y</sub>

Discussion

8.	Which of the given statements is incorrect about Microarray Analysis?
A.	It is designed to detect global changes in transcription in a genome
B.	It provides information about the levels of protein products of the genes
C.	The proteins are first separated in a column on the basis of size and then across a second dimension on a slab on the basis of charge
D.	Labeled protein samples may also be extracted from treated cells and separated by two-dimensional gel electrophoresis
Answer» C. The proteins are first separated in a column on the basis of size and then across a second dimension on a slab on the basis of charge

Discussion

Explore topic-wise MCQs in Bioinformatics.

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 X_i of the expression level E_i and reference level R_i is?

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

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

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.

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

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.

Which of the given statements is incorrect about Microarray Analysis?

Explore topic-wise MCQs in Bioinformatics.

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?

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

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

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.

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

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.

Which of the given statements is incorrect about Microarray Analysis?

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 X_i of the expression level E_i and reference level R_i is?

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.