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This section includes 18 Mcqs, each offering curated multiple-choice questions to sharpen your Bioinformatics knowledge and support exam preparation. Choose a topic below to get started.
| 1. |
To increase the specificity of prediction, a unique feature of eukaryotic promoter is employed, which is the presence of CpG islands. |
| A. | True |
| B. | False |
| Answer» B. False | |
| 2. |
Which of the following is incorrect regarding the Prediction for Eukaryotes? |
| A. | The consensus patterns are only derived from bioinformatics studies |
| B. | The experimentally determined DNA binding sites are compiled into profiles and stored in a database for scanning an unknown sequence to find similar conserved patterns |
| C. | The consensus patterns are derived from experimentally determined DNA binding sites |
| D. | The ab initio method for predicting eukaryotic promoters and regulatory elements relies on searching the input sequences for matching of consensus patterns of known promoters and regulatory elements |
| Answer» B. The experimentally determined DNA binding sites are compiled into profiles and stored in a database for scanning an unknown sequence to find similar conserved patterns | |
| 3. |
Which of the following is incorrect regarding FindTerm? |
| A. | It is a program for searching bacterial ρ-independent termination signals located at the end of operons |
| B. | It is a program for searching bacterial ρ-dependent termination signals located within the operons |
| C. | The predictions are made based on matching of known profiles of the termination signals combined with energy calculations |
| D. | It is available from the same site as FGENES and BPROM |
| Answer» C. The predictions are made based on matching of known profiles of the termination signals combined with energy calculations | |
| 4. |
In BPROM, once the operons are assigned, the program is able to predict putative promoter sequences. |
| A. | True |
| B. | False |
| Answer» B. False | |
| 5. |
Once an operon structure is known ______ for the presence of a promoter and regulatory elements _____ in the operon do not possess such DNA elements. |
| A. | only the first gene is predicted, whereas other genes |
| B. | only the first hundred genes are predicted, whereas next few genes |
| C. | only first two genes are predicted, whereas next few genes |
| D. | only first ten genes are predicted, whereas next few genes |
| Answer» B. only the first hundred genes are predicted, whereas next few genes | |
| 6. |
To improve the specificity of prediction, some algorithms selectively ______ coding regions and focus on the upstream regions________ which are most likely to contain promoters. In that sense, promoter prediction and gene prediction are coupled. |
| A. | include, (0.5 to 2.0 kb) onlyb) include, (0.5 to 2.0 Mb) onlyc) exclude, (0.5 to 2.0 Mb) onlyd) exclude, (0.5 to 2.0 k |
| B. | onlyb) include, (0.5 to 2.0 Mb) only |
| C. | exclude, (0.5 to 2.0 Mb) only |
| D. | exclude, (0.5 to 2.0 kb) only |
| Answer» E. | |
| 7. |
IN_BPROM,_ONCE_THE_OPERONS_ARE_ASSIGNED,_THE_PROGRAM_IS_ABLE_TO_PREDICT_PUTATIVE_PROMOTER_SEQUENCES.?$ |
| A. | True |
| B. | False |
| Answer» B. False | |
| 8. |
Which of the following is incorrect regarding the Prediction for Eukaryotes?$ |
| A. | The consensus patterns are only derived from bioinformatics studies |
| B. | The experimentally determined DNA binding sites are compiled into profiles and stored in a database for scanning an unknown sequence to find similar conserved patterns |
| C. | The consensus patterns are derived from experimentally determined DNA binding sites |
| D. | The ab initio method for predicting eukaryotic promoters and regulatory elements relies on searching the input sequences for matching of consensus patterns of known promoters and regulatory elements |
| Answer» B. The experimentally determined DNA binding sites are compiled into profiles and stored in a database for scanning an unknown sequence to find similar conserved patterns | |
| 9. |
Which_of_the_following_is_incorrect_regarding_FindTerm?$ |
| A. | It is a program for searching bacterial ρ-independent termination signals located at the end of operons |
| B. | It is a program for searching bacterial ρ-dependent termination signals located within the operons |
| C. | The predictions are made based on matching of known profiles of the termination signals combined with energy calculations |
| D. | It is available from the same site as FGENES and BPROM. |
| Answer» C. The predictions are made based on matching of known profiles of the termination signals combined with energy calculations | |
| 10. |
To_increase_the_specificity_of_prediction,_a_unique_feature_of_eukaryotic_promoter_is_employed,_which_is_the_presence_of_CpG_islands. |
| A. | True |
| B. | False |
| Answer» B. False | |
| 11. |
Which of the following is incorrect regarding BPROM? |
| A. | It is a web-based program for prediction of bacterial promoters |
| B. | It is a web-based program only for prediction of eukarotic promoters |
| C. | It uses a linear discriminant function |
| D. | The linear discriminant function is combined with signal and content information |
| Answer» C. It uses a linear discriminant function | |
| 12. |
Which of the following is correct regarding the method for prokaryotic operon prediction? |
| A. | It relies on two kinds of information: gene orientation and intergenic distances of a pair of genes of interest and conserved linkage of the genes based on comparative genomic analysis |
| B. | It relies only on the gene orientation and intergenic distances of a pair of genes of interest |
| C. | It relies only on the conserved linkage of the genes based on comparative genomic analysis |
| D. | The prediction cannot be done manually using the rules |
| Answer» B. It relies only on the gene orientation and intergenic distances of a pair of genes of interest | |
| 13. |
Once an operon structure is known, ______ for the presence of a promoter and regulatory elements, _____ in the operon do not possess such DNA elements. |
| A. | only the first gene is predicted, whereas other genes |
| B. | only the first hundred genes are predicted, whereas next few genes |
| C. | only first two genes are predicted, whereas next few genes |
| D. | only first ten genes are predicted, whereas next few genes |
| Answer» B. only the first hundred genes are predicted, whereas next few genes | |
| 14. |
Operon prediction is less important in prokaryotic promoter prediction. |
| A. | True |
| B. | False |
| Answer» C. | |
| 15. |
To improve the specificity of prediction, some algorithms selectively ______ coding regions and focus on the upstream regions________, which are most likely to contain promoters. In that sense, promoter prediction and gene prediction are coupled. |
| A. | include, (0.5 to 2.0 kb) only |
| B. | include, (0.5 to 2.0 Mb) only |
| C. | exclude, (0.5 to 2.0 Mb) only |
| D. | exclude, (0.5 to 2.0 kb) only |
| Answer» E. | |
| 16. |
Which of the following is incorrect regarding the ab initio approaches? |
| A. | The conventional approach to detecting a promoter or regulatory site is through matching a consensus sequence pattern represented by regular expressions |
| B. | The conventional approach to detecting a promoter or regulatory site is through matching a position-specific scoring matrix constructed from well-characterized binding sites |
| C. | The consensus sequences or the matrices are relatively short, covering 6 to 10 bases |
| D. | The consensus sequences or the matrices are relatively large, covering 700 to 1000 bases |
| Answer» E. | |
| 17. |
The advantage of the ab initio method is that the sequence can be applied as such without having to obtain experimental information. |
| A. | True |
| B. | False |
| Answer» B. False | |
| 18. |
Ab initio type of algorithm predicts prokaryotic and eukaryotic promoters and regulatory elements based on characteristic sequences patterns for promoters and regulatory elements. |
| A. | True |
| B. | False |
| Answer» B. False | |