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http//creativecommons.org/licenses/by-sa/2.0/
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Which one is not true?
1. Evidence shows that mice are attracted to
their mates based on genetic diversity. This
they can somehow tell from the smell of their
urine. There is also currently some weak
evidence that humans indirectly do the same
thing. 2. According to established data within
the senecense field, people who take longer to
sht arguably should live longer. 3. A
transgenic mouse, affectionately known as the
"Doogie" mouse has been produced with superior
intellect and mental prowess. 4. Research based
on twins (identical and fraternal) reared
together and apart have uncovered the genetic
basis of happiness.
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Biology for Bioinformatics

• or
• Lets see if we can review 40 useful biological
  terms in 40 minutes

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central dogma
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genome
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Haemophilus Influenza 1,830,137 E.
Coli 4,639,221 Arabidopsis
122,409,949 Drosophila 122,653,977 Fugu
365,000,000 Rice 430,000,000 Humans 3,
300,000,000
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DNA nucleotide hybridization
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replication DNA polymerase
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PCR
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DNA sequence dideoxynucleotide shotgun
sequencing contig
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dideoxynucleotide nucleotide - 3OH
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...ATCGATCG ...TAGCTAGC ...TAGCTAG ...TAGCTA ...T
AGCT ...TAGC ...TAG ...TA ...T
...ATCGATCG ...TAGCTAGC ...TAGCTAG ...TAGCTA ...T
AGCT ...TAGC ...TAG ...TA ...T
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gene
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ORF gene structure promoter intron exon
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ggagcctcgg gaggtggtgg agtgacctgg ccccagtgct
gcgtccttat cagccgagcc ggtcccagct cttgctcctg
cctgtttgcc tggaaatggc cacgcttctc
cttctccttg gggtgctggt ggtaagccca gacgctctgg
ggagcacaac agcagtgcag acacccacct ccggagagcc
tttggtctct actagcgagc ccctgagctc aaagatgtac
accacttcaa taacaagtga ccctaaggcc gacagcactg
gggaccagac ctcagcccta cctccctcaa cttccatcaa
tgagggatcc cctctttgga cttccattgg tgccagcact
ggttcccctt tacctgagcc aacaacctac caggaagttt
ccatcaagat gtcatcagtg ccccaggaaa cccctcatgc
aaccagtcat cctgctgttc ccataacagc aaactctcta
ggatcccaca ccgtgacagg tggaaccata acaacgaact
ctccagaaac ctccagtagg accagtggag cccctgttac
cacggcagct agctctctgg agacctccag aggcacctct
ggaccccctc ttaccatggc aactgtctct ctggagactt
ccaaaggcac ctctggaccc cctgttacca tggcaactga
ctctctggag acctccactg ggaccactgg accccctgtt
accatgacaa ctggctctct ggagccctcc agcggggcca
gtggacccca ggtctctagc gtaaaactat ctacaatgat
gtctccaacg acctccacca acgcaagcac tgtgcccttc
cggaacccag atgagaactc acgaggcatg ctgccagtgg
ctgtgcttgt ggccctgctg gcggtcatag tcctcgtggc
tctgctcctg ctgtggcgcc ggcggcagaa gcggcggact
ggggccctcg tgctgagcag aggcggcaag cgtaacgggg
tggtggacgc ctgggctggg ccagcccagg tccctgagga
gggggccgtg acagtgaccg tgggagggtc cgggggcgac
aagggctctg ggttccccga tggggagggg tctagccgtc
ggcccacgct caccactttc tttggcagac ctggctctct
ggagccctcc agcggggcca gtggacccca ggtctctagc
gtaaaactat ctacaatgat gtctccaacg acctccacca
acgcaagcac tgtgcccttc cggaacccag atgagaactc
acgaggcatg ctgccagtgg ctgtgcttgt ggccctgctg
gcggtcatag
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prokaryote
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6
2
3
shine dalgarno
ATG
STOP
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promoter
open reading frame (gt300aa)
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5
GC content (coding vs non-coding)
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eukaryote
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CAP signal




ATG
chromatin
STOP
TATA
polyA
kozak


CpG
promoter
enhancer silencer
exon
intron




maybe

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Genome annotation
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SNP
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transcription
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RNA
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ATCG AUCG
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mRNA polyA tail gene expression reverse
transcriptase
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departing from the central dogma...
reverse transcriptase
RNA gt DNA mRNA gt cDNA
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microarray probe
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EST SAGE
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HAIKU ON THE GENERAL CONCEPT BEHIND
SERIAL ANALYSIS OF GENE EXPRESSION.
SAGE is the answer doing gene expression by
sequencing all. Splash!
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translation codon
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codoncodoncodoncodoncodoncodon
UGCGCAGUAGAAGCAACA
CAVEAT
mRNA
protein
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protein proteome mass spectrometry
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metabolomics
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systems biology
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Which one is not true?
1. Evidence shows that mice are attracted to
their mates based on genetic diversity. This
they can somehow tell from the smell of their
urine. There is also currently some weak
evidence that humans indirectly do the same
thing. 2. According to established data within
the senecense field, people who take longer to
sht arguably should live longer. 3. A
transgenic mouse, affectionately known as the
"Doogie" mouse has been produced with superior
intellect and mental prowess. 4. Research based
on twins (identical and fraternal) reared
together and apart have uncovered the genetic
basis of happiness.
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central dogma genome DNA nucleotide 3 /
5 hybridization replication mitosis DNA
polymerase vector BAC cosmid plasmid library seque
nce alignment PCR DNA sequence dideoynucleotide co
ntig
gene ORF gene structure promoter intron exon proka
ryote ATG GC content shine dalgarno eukaryote chro
matin TATA CAP signal Kozak sequence enhancer sile
ncer CpG SNP
RNA transcription mRNA polyA tail gene
expression reverse transcriptase microarray probe
SAGE EST translation codon protein proteome mass
spectrometry kinetics signal transduction metabolo
mics systems biology
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Credits

• The inspiration, analogies, and most of the
  slides for this lecture come from early morning
  commutes with my very talented next door
  neighbor
• Dr. Dave Ng, AMBL, MSL
• http//www.bioteach.ubc.ca/
• Thanks also to...
• Mike Wilson
• Jenn Gardy
• Stef Butland
• Will Hsiao
• Francis Ouellette