Bioinformatics Mcqs

Page No. 72

McPromoter, a web-based program, uses a neural network to make promoter predictions.


a True

✓


b False

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ceither true and false

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dnone of these

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View Answer True

Which of the following is incorrect regarding First EF?


a It is a program that predicts promoters for bacterial DNA

✓


bIt is a web-based program that predicts promoters for human DNA

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cIt stands for First Exon Finder

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d It integrates gene prediction with promoter prediction

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Which of the following is incorrect regarding Cluster-Buster?


aIt is an HMM-based web-based program

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b A query sequence is scanned with a window size of 1 kb for putative regulatory motifs using motif HMMs

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c It works by detecting a region of high concentration of unknown transcription factor binding sites and regulatory motifs at the initiation

✓


dIt is designed to find clusters of regulatory binding sites

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Which of the following is incorrect regarding Eponine?


a It is a web-based program that predicts transcription start sites

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b It is a web-based program that particularly predicts tranpososons and retropososons

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cThe regulatory sites include the TATA box, the CCAAT box, and CpG islands

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d It is based on a series of pre-constructed PSSMs of several regulatory sites

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CpGProD is a web-based program that predicts promoters containing a high density of CpG islands _______


a in archea genomic sequences

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b in mammalian genomic sequences

✓


cin eukaryotic and bacterial genomic sequences

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donly in bacterial genomic sequences

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The eukaryotic transcription initiation is less dependent on transcription factors.


a True

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bFalse

✓


ceither true and false

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dnone of these

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View Answer False

Which of the following is untrue about PhyloCon?


aIt stands for Phylogenetic Consensus

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bIt is used to identify regulatory motifs

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c It is a UNIX program that combines phylogenetic footprinting with gene expression profiling analysis

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dNo conservation among orthologous genes and conservation among coregulated genes is a disadvantage

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INCLUSive is a suite of web based tools designed to streamline the process of microarray data collection and sequence motif detection.


aTrue

✓


bFalse

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ceither true and false

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dnone of these

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View Answer True

Which of the following is untrue about Expression Profiling–Based Method?


aGenes with similar expression profiles are considered coexpressed, which can be identified through a clustering approach

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bThis approach appears to be less effective for finding transcription factor binding sites

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cAn advanced alignment-independent profile construction method such as EM and Gibbs motif sampling is often used in finding the subtle sequence motifs

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dThe basis for coexpression is thought to be due to common promoters and regulatory elements

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Which of the following is untrue about FootPrinter?


a It is a web-based program for phylogenetic footprinting using multiple input sequences

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bThe motifs from organisms spanning over the widest evolutionary distances are identified as promoter or regulatory motifs

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c The program performs multiple alignment of the input sequences to identify conserved motifs

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dThe user does not necessarily provides a phylogenetic tree that defines the evolutionary relationship of the input sequences

✓



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