Recent questions tagged bioinformatics

BLAST and its extensions can be used to determine similarity of a query protein sequence with which of the following database(s)?A database of translated nucleotide seque...

​​​​Correctly match the following Bioinformatic tool/Database with its respective Utility.\begin{array}{|l|l|}\hline \textbf{Bioinformatic tool/Database} & \textbf{Utilit...

Which one of the following programs is used for finding distantly related (or remote) protein homologs?BLASTNBLASTXPSI-BLASTTBLASTX

Which one of the following is used for global alignment of two protein sequences?Chou-Fasman methodGarnier-Osguthorpe-Robson (GOR) methodNeedleman-Wunsch algorithmSmith-W...

If there are three unrooted trees for four protein sequences, the number of rooted trees for the same number of sequences is _______________.

Which of the following is $\text{NOT}$ used for generating an optimal alignment of two nucleotide sequences?Gap penaltiesMatch scoresMismatch scoresNucleotide composition

The maximum parsimony method is used to construct a phylogenetic tree for a set of sequences. Which one of the following statements about the method is $\text{CORRECT}?$I...

Number of unrooted trees in a phylogeny of five sequences is$3$$15$$105$$945$

Which one of the following methods is used to test the significance of a predicted phylogeny?BootstrapMaximum likelihoodMaximum parsimonyMinimum evolution

Which one of the following tools is used to compare all the possible six-open reading frames of a given nucleotide query sequence with all the available six-open reading ...

A $\text{DNA}$ solution of $50 \: \mu g \: mL^{-1}$ concentration gives an absorbance of $1.0$ at $260 \textit{ nm}$. An aliquot of $20 \: \mu L$ from a $50 \: \mu L$ pur...

Which of the following statements are $CORRECT$ when a protein sequence database is searched using the $BLAST$ algorithm?A larger E-value indicates higher sequence simila...

An algorithm was designed to find globins in protein sequence databases. A database which has $78$ globin sequences was searched using this algorithm. The algorithm retri...

Which one of the following is a database of protein sequence motifs?$PROSITE$$TrEMBL$$SWISSPROT$$PDB$

Which one of the following techniques can be used to compare the expression of a large number of genes in two biological samples in a single experiment?Polymerase chain r...

The number of possible rooted trees in a phylogeny of three species is ______.

Which one of the following is NOT an algorithm for building phylogenetic trees?Maximum parsimonyNeighbor joiningMaximum likelihoodBootstrap

The transcription factor $X$ binds a $10$ base pair DNA stretch. In the DNA of an organism, $X$ was found to bind at $20$ distinct sites. An analysis of these $20$ bindin...

At the transcription start site of a gene, any of the four nucleotides can occur with equal probability $p$. The Shannon Entropy $S$, given by $S= – \Sigma_{i=1}^4 p_i \l...

Identify the file format given below:$>$P$1$; JMFDProtein X – Homo sapiensMKALTARQQEVFDLIRDHISRTLRQQGDWLGDEFASTANBRFGCG

How many rooted and unrooted phylogenetic trees, respectively, are possible with four different sequences?$3$ and $15$$15$ and $3$$15$ and $12$$12$ and $3$

Plasmid DNA $(0.5 \: \mu g)$ containing an ampicillin resistance marker was added to $200 \: \mu l$ of competent cells. The transformed competent cells were diluted $10,0...

Consider the following multiple sequence alignment of four DNA sequences.$$\begin{array}{cccc} A & C & T & A \\ A & C & T & G \\ A & G & T & C \\ A & G & C & T \end{arra...

The algorithm for BLAST is based onDynamic ProgrammingHidden Markov Modelk-tuple analysisNeural Network

In an affine gap penalty model, if the gap opening penalty $-20$, gap extension penalty is $-4$ and gap length is $8$, the gap score is__________.

The length of the minimum unique stretch of DNA sequence that can be found only once in a $3$ billion base pairs long genome is$14$$15$$16$$18$

The amino acid substitution matrices in decreasing order of stringency for comparing protein sequences arePAM$250$, PAM$120$, PAM$100$PAM$100$, PAM$120$, PAN$250$PAM$250$...

A DNA fragment of $5000bp$ needs to be isolated from E.coli (genome size $4\times10^3kb$) genomic library.The number of clones to represent this fragment in genomic libra...

A DNA fragment of 5000bp needs to be isolated from $E.coli$ (genome size $4\times10^3 kb$) genomic library.The minimum number of independent recombinant clones required t...

Determine the correctness or otherwise of the following $\text{Assertion (a) and Reason (r)}$.$\text{Assertion:}$ $\text{UPGMA}$ method produces ultrametric tree.$\text{R...

Match the entries in the $\text{Group I}$ with the entries in $\text{Group II}$.$\begin{array}{|l|l|l|l|} \hline & \text{Group I} && \text{Group II} \\ \hline P. & \text{...

Calculate the percentage sequence identity for the pairwise alignment given below. ______________$\text{HELLO-}$$\text{YELLOW}$

The suitable substitution matrix to align closely related sequences is$\text{PAM 250 or BLOSSUM 80}$$\text{PAM 40 or BLOSSUM 80}$$\text{PAM 120 or BLOSSUM 40}$$\text{PAM ...

Human genome sequencing project involved the construction of genomic library inbacterial artificial chromosome$pBR322$bacteriophage$pcDNA3.1$

A single base pair of DNA weighs $1.1 \times 10^{-21}$ grams. How many picomoles of a plasmid vector of length $2750$ bp are contained in 1 $\mu$g of purified DNA?$0.30$$...

While searching a database for similar sequences, E value does NOT depend on thesequence lengthnumber of sequences in the databasescoring systemprobability from a normal ...

An example of a program for constructing a phylogenetic tree isphylipphrapprodomPHDsec

An example of a derived protein structure database isPfamSCOPGEOProsite