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Arooba Baig
 MATLAB

 MATLAB is a high-level language and interactive
environment for numerical computation, visualization, and
programming.
 Features of Matlab
 you can analyze data,
 develop algorithms,
 Create models and applications.
 BCL2 B-cell CLL/lymphoma 2 [Homo sapiens (human)]
 Function
 Transcriptional regulator that acts as an activator. Promotes beta-
catenin transcriptional activity
 Fasta format
 >gi|568815580:c63319778-63123346 Homo sapiens chromosome
18, GRCh38 Primary
AssemblyCTTCTCCCCACCCCTCGCCGCACCACACACAGCG
CGGGCTTCTAGCGCTCGGCACCGGCGGGCCAGGCGCGTCC
TGCCTTCATTTATCCAGCAGCTTTTCGGAAAATGCATTTGC
TGTTCGGAGTTTAATCAGAAGAGGATTCCTGCCTCCGTCC
CCGGCTCCTTCATCGTCCCCTCTCCCCTGTCTCTCTCCTGG
GGAGGCGTGAAGCG
 1-BASE LOOKUP
 Find nucleotide codes, integers, names, and complements
 converts a DNA sequence to an RNA sequence by converting
any thymine nucleotides (T) in the DNA sequence to uracil
nucleotides (U)
 Convert nucleotide sequence from letter to integer
representation
 calculates the complementary strand of a DNA or RNA
nucleotide sequence.
 seqreverse calculates the reverse strand of a DNA or RNA
nucleotide sequence
 Return a BLOSUM matrix with the amino acids in a specific
order.
 PAM returns the PAMN scoring matrix for amino acid
sequences
 draws the RNA secondary structure specified by
RNA2ndStruct
 Creat new sequence which is the combination of two seq 1
and seq 2
 nwalign (Seq1, Seq2) returns the optimal global alignment
score in bits.
 It creates a random sequence with a length specified by
SeqLength
 Swalign (Seq1, Seq2) returns the optimal local alignment
score in bits. The scale factor used to calculate the score is
provided by the scoring matrix.
 Find amino acid codes, integers, abbreviations, names, and
codons
 base count(SeqNT) counts the number of each type of base in
a SeqNT
 Seqwordcount (Seq, Word) counts the number of times that a
word appears in a sequence, and then returns the number of
occurrences of that word.
Bio info

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Bio info

  • 2.  MATLAB   MATLAB is a high-level language and interactive environment for numerical computation, visualization, and programming.  Features of Matlab  you can analyze data,  develop algorithms,  Create models and applications.
  • 3.  BCL2 B-cell CLL/lymphoma 2 [Homo sapiens (human)]  Function  Transcriptional regulator that acts as an activator. Promotes beta- catenin transcriptional activity  Fasta format  >gi|568815580:c63319778-63123346 Homo sapiens chromosome 18, GRCh38 Primary AssemblyCTTCTCCCCACCCCTCGCCGCACCACACACAGCG CGGGCTTCTAGCGCTCGGCACCGGCGGGCCAGGCGCGTCC TGCCTTCATTTATCCAGCAGCTTTTCGGAAAATGCATTTGC TGTTCGGAGTTTAATCAGAAGAGGATTCCTGCCTCCGTCC CCGGCTCCTTCATCGTCCCCTCTCCCCTGTCTCTCTCCTGG GGAGGCGTGAAGCG
  • 4.  1-BASE LOOKUP  Find nucleotide codes, integers, names, and complements
  • 5.
  • 6.  converts a DNA sequence to an RNA sequence by converting any thymine nucleotides (T) in the DNA sequence to uracil nucleotides (U)
  • 7.  Convert nucleotide sequence from letter to integer representation
  • 8.
  • 9.  calculates the complementary strand of a DNA or RNA nucleotide sequence.
  • 10.  seqreverse calculates the reverse strand of a DNA or RNA nucleotide sequence
  • 11.  Return a BLOSUM matrix with the amino acids in a specific order.
  • 12.  PAM returns the PAMN scoring matrix for amino acid sequences
  • 13.  draws the RNA secondary structure specified by RNA2ndStruct
  • 14.
  • 15.  Creat new sequence which is the combination of two seq 1 and seq 2
  • 16.  nwalign (Seq1, Seq2) returns the optimal global alignment score in bits.
  • 17.  It creates a random sequence with a length specified by SeqLength
  • 18.  Swalign (Seq1, Seq2) returns the optimal local alignment score in bits. The scale factor used to calculate the score is provided by the scoring matrix.
  • 19.  Find amino acid codes, integers, abbreviations, names, and codons
  • 20.  base count(SeqNT) counts the number of each type of base in a SeqNT
  • 21.  Seqwordcount (Seq, Word) counts the number of times that a word appears in a sequence, and then returns the number of occurrences of that word.