Q.1
The eukaryotic transcription initiation is less dependent on transcription factors.
  • a) True
  • b) False
Q.2
CpGProD is a web-based program that predicts promoters containing a high density of CpG islands _______
  • a) in archea genomic sequences
  • b) in mammalian genomic sequences
  • c) in eukaryotic and bacterial genomic sequences
  • d) only in bacterial genomic sequences
Q.3
Which of the following is incorrect regarding Eponine?
  • a) It is a web-based program that predicts transcription start sites
  • b) It is a web-based program that particularly predicts tranpososons and retropososons
  • c) The regulatory sites include the TATA box, the CCAAT box, and CpG islands
  • d) It is based on a series of pre-constructed PSSMs of several regulatory sites
Q.4
Which of the following is incorrect regarding Cluster-Buster?
  • a) It is an HMM-based web-based program
  • b) A query sequence is scanned with a window size of 1 kb for putative regulatory motifs using motif HMMs
  • c) It works by detecting a region of high concentration of unknown transcription factor binding sites and regulatory motifs at the initiation
  • d) It is designed to find clusters of regulatory binding sites
Q.5
Which of the following is incorrect regarding First EF?
  • a) It is a program that predicts promoters for bacterial DNA
  • b) It is a web-based program that predicts promoters for human DNA
  • c) It stands for First Exon Finder
  • d) It integrates gene prediction with promoter prediction
Q.6
McPromoter, a web-based program, uses a neural network to make promoter predictions.
  • a) True
  • b) False
Q.7
The input for the neural network includes parameters for sequence physical properties, such as ______
  • a) DNA bendability
  • b) Signals such as the TATA box
  • c) Signals such as initiator box
  • d) Signals such as CpAA islands
Q.8
TSSW is a web program that distinguishes promoter sequences from non-promoter sequences based on a combination of unique content information such as hexamer/trimer frequencies and signal information such the TATA box in the promoter region.
  • a) True
  • b) False
Q.9
Which of the following is incorrect regarding CONPRO?
  • a) It is a web-based program that uses a consensus method
  • b) It is used to identify promoter elements for human DNA
  • c) cDNA does not play a role in prediction
  • d) The program uses the information to search the human genome database for the position of the gene
Q.10
In CONPRO, for each program, the highest score prediction is taken as the promoter in the region.
  • a) True
  • b) False
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