I need help with the following questions as soon as
possible.
1. In question #1 of homework04, you are asked to read a Fasta
format DNA sequence file with 6 records (
seq.fasta). BioJava has made this type of operation much
simpler (see the java program:
readFastaDNA.java, in the In-Class exercises main topic
under week10-11 forum). With little modification to that program,
please develop a Java program to read a GenBank format DNA sequence
file (
GenBank_seq.gb), and extract the GenBank accession number,
the length of the sequence, and the description of the sequence
(all printed on the first line)Â and sequence itself to be
printed as a separate line.( 3 points)
2. In homework03, you are asked to write two methods for a DNA
class,
codon()
and
codon2aa()
to parse a piece of DNA sequence into codons of three
reading frames and then translate these codons into corresponding
amino acid sequences. Since this type of conversions is so common
in Biology, BioJava has a collection of related classes to deal
with DNA and protein sequences. Please review the
org.biojava.bio.symbol, and org.biojava.bio.seq packages (mainly
the DNATools, RNATools, and the GeneticCodes classes) to develop a
Java program to translate a DNA sequence into its corresponding
protein sequence. 1) The program should incorporate the functionality of
readFastaDNA.javaabove in Q 1 to read in one or more DNA
sequences from a Fasta formatted DNA sequence file (
seq.fasta). (2 point) 2) The program should be able to translate three forwarding open
reading frames. First use the transcribe() method of the
GeneticCodes class to transcribe the DNA sequence into a RNA
sequence, and then use the translate() method to translate it into
a protein sequence. Please note that the translate method only
takes a sequence with a length divisible by 3, so you need to
adjust the length of the sequence depends on which reading frame is
used. (3 points)
Solution details:
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This question was answered on: Sep 05, 2019
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