Bioinformatics Mcqs

Page No. 68

In Ab Initio–Based Programs for Gene Prediction– Gene content refers to coding statistics, which includes nonrandom nucleotide distribution, amino acid distribution, synonymous codon usage, and hexamer frequencies.


aTrue


bTrue


ceither true and false


dnone of the mentioned


View Answer True

Which of the following is untrue about Ab Initio–Based Programs for Gene Prediction?


aThe goal of the ab initio gene prediction programs is to discriminate exons from noncoding sequences


bThe goal is joining exons together in the correct order


cThe main difficulty is correct identification of exons


dTo predict exons, the algorithms rely solely on gene signals



Most vertebrate genes use __________ as the translation start codon and have a uniquely conserved flanking sequence call a Kozak sequence (CCGCCATGG).


aAAG


b ATG


cAUG


dAGG


View Answer ATG

The main issue in prediction of eukaryotic genes is the identification of exons, introns, and splicing sites.


aTrue


bTrue


ceither true and false


dnone of the mentioned


View Answer True

Which of the following is untrue about translation and transcription?


aThe first is capping is at the 5’ end of the transcript which involves methylation at the initial residue of the RNA


bThe splicing process involves a large RNA-protein complex called spliceosome


cThe second event is splicing, which is the process of removing exons and joining introns


dThe second event is splicing, which is the process of removing introns and joining exons



Because different prediction programs have different levels of sensitivity and specificity, it makes sense to combine results of multiple programs based on consensus. This idea has prompted development of consensus-based algorithms.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer True

TwinScan is also a similarity-based gene-finding Server and it is similar to GenomeScan in that it uses GenScan to predict all possible exons from the genomic sequence.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer True

Which of the following is untrue about SGP-1?


aThe program translates all potential exons in each sequence and does pair wise alignment for the translated protein sequences using a dynamic programming approach


bThe near-perfect matches at the protein level define coding regions


c It is a similarity-based web program that aligns two genomic DNA sequences from distinctly related organisms


dIt stands for Syntenic Gene Prediction



Which of the following is untrue about EST2Genome?


aIt is a web-based program purely based on the sequence alignment approach to define intron–exon boundaries


bIt compares an EST (or cDNA) sequence with a genomic DNA sequence containing the corresponding gene


cThe alignment is rarely done using a dynamic programming–based algorithm


dAdvantage of the approach is the ability to find very small exons and alternatively spliced exons that are very difficult to predict by any ab initio–type algorithms



GenomeScan is a web-based server that combines GENSCAN prediction results with BLASTX similarity searches.


aTrue


bFalse


ceither true and false


dnone of the mentioned


View Answer True

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