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Study sets matching "genomics"

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Study sets matching "genomics"

15 terms
Genomics
gel electrophoresis
restriction enzymes
genetic engineering
bacterial transformation
the separation of macromolecules based on their size and char…
enzymes that cut a DNA molecule at a particular location. The…
The artificial modification of an organisms genetic material;…
when a host bacteria takes in foreign genetic material and ex…
gel electrophoresis
the separation of macromolecules based on their size and char…
restriction enzymes
enzymes that cut a DNA molecule at a particular location. The…
28 terms
Genomics
Genetic Maps
Restriction Maps
FISH
Sequence-Tagged Sites (STS)
provide relative locations of genes that are determined by re…
a common type of physical map that shows the actual location…
Fluorescence in situ Hybridization; large scale physical maps…
small stretch of DNA that only occurs once which makes it uni…
Genetic Maps
provide relative locations of genes that are determined by re…
Restriction Maps
a common type of physical map that shows the actual location…
32 terms
Genomics
genomics
genome sequence
structural genomics
comparative genomics
involves "high throughput" approaches to study all of the gen…
DNA
determine the complete sequence of genome... assembly and annota…
analyzes genome sequence to understand patterns of sequence c…
genomics
involves "high throughput" approaches to study all of the gen…
genome sequence
DNA
28 terms
genomics
NAT1 NAT 2
G6PD
estrogen receptor 1
TMPT
1
2
3
4
NAT1 NAT 2
1
G6PD
2
12 terms
Genomics
intron
exon
RNA splicing
contig
A non-coding, intervening sequence within a eukaryotic gene
any part of a gene that codes for part of the mRNA produced b…
Process by which all introns are removed from RNA transcripts…
a set of overlapping DNA segments that together represent a c…
intron
A non-coding, intervening sequence within a eukaryotic gene
exon
any part of a gene that codes for part of the mRNA produced b…
18 terms
Genomics
Definition
Review 1
Review 2
Abnormalities
The branch of molecular biology concerned with the structure,…
- 46 chromosomes... - 23 pairs from each parent... - 22 pairs are a…
- All somatic cells have 46 (diploid)... - Sperm and egg contain…
- Can occur in either autosome or the sex chromosomes. Two ca…
Definition
The branch of molecular biology concerned with the structure,…
Review 1
- 46 chromosomes... - 23 pairs from each parent... - 22 pairs are a…
46 terms
Genomics
Genetics (define)
Genomics (define)
Classical "Mendelian" genetics
UNDERLYING PRINCIPLE OF GENETIC DISEASE:
the study the way an individuals' traits are transmitted from…
interaction of genes with other genes and the environment
One gene = one trait = one disease... (now we know most diseases…
genetic disease = disease in GERMLINE, passed on... somatic dis…
Genetics (define)
the study the way an individuals' traits are transmitted from…
Genomics (define)
interaction of genes with other genes and the environment
131 terms
Genomics
What are three ways that gemones can r…
Genomics and development
Genomics and behavior
Genomics and populations
Within an individual, Within/among populations, Among species
The differences between different organisms is primarily due…
Differences in genomes can cause differences in behavior
Difference in genomes can help to differentiate populations
What are three ways that gemones can r…
Within an individual, Within/among populations, Among species
Genomics and development
The differences between different organisms is primarily due…
49 terms
Genomics:
Prokaryotic Genome Size and content: (…
What types of prokaryotes have the sma…
What is the minimum number of genes fo…
What are the sizes of the largest prok…
-Prokaryotic genome size ranges from that of large viruses to…
Parasitic or endosymbiont prokaryotes... -Range from 490 kpb to…
250 to 300
-12.3 Mbp (sorangium cellulosum)... -Largest archeaal genomes ar…
Prokaryotic Genome Size and content: (…
-Prokaryotic genome size ranges from that of large viruses to…
What types of prokaryotes have the sma…
Parasitic or endosymbiont prokaryotes... -Range from 490 kpb to…
15 terms
Genomics
What is genomics?
DNA seqeuncing
Illumina, Roche 454, ion torrent
Shotgun sequencing
Metagenomics - soil, water, ocean, human, gut, mouth, teeth,…
Sanger di-deoxy sequencing 1980 to date, human genome sequenc…
Short sequences, less accurate but massively parallel, millio…
Genome assembly relies on identifying overlapping sequences
What is genomics?
Metagenomics - soil, water, ocean, human, gut, mouth, teeth,…
DNA seqeuncing
Sanger di-deoxy sequencing 1980 to date, human genome sequenc…
99 terms
Genomics
Genomics
Gene technology
Describe the distribution of DNA as co…
Roles of Non-Coding DNA
Studying whole genetic sets of DNA base sequences of a partic…
Isolating + manipulating sections of DNA
- Only 1.5% DNA is coding ... - Non-coding DNA carries out regul…
- Regulatory sequences... - Telomeres; sequences protecting ends…
Genomics
Studying whole genetic sets of DNA base sequences of a partic…
Gene technology
Isolating + manipulating sections of DNA
71 terms
Genomics
What is directly responsible for codin…
How many nucleotides are there?
Sickle Cell Disease ... What type of dis…
Cystic Fibrosis ... What type of disorde…
Exome
3.2 billion
Autosomal Recessive Disorder
Autosomal recessive
What is directly responsible for codin…
Exome
How many nucleotides are there?
3.2 billion
43 terms
Genomics
45%
30%
conserved
ortholog paralog
What percentage of the human genome is transposons?
What percentage of human genes have a known function?
It is easy to identify highly _____ genes like actin or histo…
An _____ is the equivalent gene in another species while a __…
45%
What percentage of the human genome is transposons?
30%
What percentage of human genes have a known function?
35 terms
Genomics
What is a genome?
What is the size of the human genome?
How much DNA is in the human cell?
Why is there a disparity between the g…
The totality of DNA in a cell.
3.2 billion base pairs, 3.2 Gb. 3200 Mb, 3,200,000 kb
About 6.5 billion base pairs.
Most cells are diploid and contain 1000's of mitochondria whi…
What is a genome?
The totality of DNA in a cell.
What is the size of the human genome?
3.2 billion base pairs, 3.2 Gb. 3200 Mb, 3,200,000 kb
16 terms
Genomics
What kinds of things get annotated in…
What is an open reading frame (ORF)?
Ortholog (homologous genes)
Paralog (homologous genes)
The software programs create a DNA-sequence alignment (simila…
It is the part of a reading frame that codes for the gene. St…
Genes in different species (arise through speciation)
Genes in same species (arise through duplication)
What kinds of things get annotated in…
The software programs create a DNA-sequence alignment (simila…
What is an open reading frame (ORF)?
It is the part of a reading frame that codes for the gene. St…
10 terms
Genomics
genomics
genome
the human genome
bioinformatics
field of genetics that studies the mapping, sequencing and fu…
a complete set of DNA sequences carried by in a cell (an orga…
- 23 chromosomal DNA molecules... - a smaller cirucular DNA mole…
uses computers and software to collect, analyze and store gen…
genomics
field of genetics that studies the mapping, sequencing and fu…
genome
a complete set of DNA sequences carried by in a cell (an orga…
17 terms
Genomics
Genomics
Structural genomics
functional genomics
comparative genomics
the study of molecular organization of genomes and their info…
physical nature of genomes
functions of genomes
compares the genomes between different organisms
Genomics
the study of molecular organization of genomes and their info…
Structural genomics
physical nature of genomes
12 terms
Genomics
dideoxyribonucleotides
Shotgun sequencing
2nd gen sequencing
3rd gen sequencing
Nucleotides used for Sanger sequencing
sequencing method in which samples are fragmented and cloned
defined by use of "massively parallel methods". Ex. 454 seque…
defined by sequencing of single DNA molecules
dideoxyribonucleotides
Nucleotides used for Sanger sequencing
Shotgun sequencing
sequencing method in which samples are fragmented and cloned
28 terms
Genomics
Structural genomics
Genomics
Genomic library
Bp
Area of genomics that studies the organization and sequence o…
Study of the content, organization, and function of genetic i…
Collection of bacterial or phage colonies containing DNA frag…
1 base pair, I set of nucleotides
Structural genomics
Area of genomics that studies the organization and sequence o…
Genomics
Study of the content, organization, and function of genetic i…
18 terms
Genomics
genomics
shotgun sequencing
sonicate
bacterial artificial chromosome (BACs)
scientific effort to sequence, interpret, and compare whole g…
early method for sequencing whole genome using sonication and…
using sound waves to break DNA into fragments
plasmid that holds fragments of a genome
genomics
scientific effort to sequence, interpret, and compare whole g…
shotgun sequencing
early method for sequencing whole genome using sonication and…
35 terms
Genomics
Genome
Chromosome
Transcriptome
Proteome
An organism's complete set of DNA, including all genes
A packaged and organized structure containing the DNA of the…
set of non/coding RNA molecules
entire set of proteins expressed in an organism or in a speci…
Genome
An organism's complete set of DNA, including all genes
Chromosome
A packaged and organized structure containing the DNA of the…
14 terms
Genomics
Genetics
Genomics
Genotype
Phenotype
the study of DNA sequences and impact on inheritance; focuses…
entire set of genes in an organism; considers the sequencing…
the specific genes of an organism that determines traits (inh…
physical expression of gene activity.
Genetics
the study of DNA sequences and impact on inheritance; focuses…
Genomics
entire set of genes in an organism; considers the sequencing…
15 terms
Genomics
Genomics
Structural Genomics
Comparative Genomics
Functional Genomics
study of genomes or ALL the DNA of an organism. We can now co…
Architecture, genetic mapping, sequencing and assembly... major…
...
...
Genomics
study of genomes or ALL the DNA of an organism. We can now co…
Structural Genomics
Architecture, genetic mapping, sequencing and assembly... major…
14 terms
GENOMICS
genome
genomics
whole-genome sequencing
contiguous fragment
the complete set of DNA in a cell
the study of a whole genome (all DNA inside a cell)
(shot-gun sequencing) DNA is cut with restriction enzymes and…
(contigs) the DNA fragments that are cut by restriction enzym…
genome
the complete set of DNA in a cell
genomics
the study of a whole genome (all DNA inside a cell)
9 terms
Genomics
cDNA
Expressed Sequence Tags (ESTs)
Genomic Annotation
cDNA library
DNA made from mRNA with reverse transcriptase
sequence reads from both ends of a cDNA clone
the process of attaching biological info. to genome sequences
collection of clones of cDNA, usually made from the same mRNA…
cDNA
DNA made from mRNA with reverse transcriptase
Expressed Sequence Tags (ESTs)
sequence reads from both ends of a cDNA clone
82 terms
Genomics
The normal diploid complement of 46 ch…
the number of chromosomes is different…
Extra X or Y, Extra 21 18 13, single X
Extra X or Y (XXY or XYY)
Euploidy
Aneuploidy
Aneuploidy is an abnormality that is compatible with life suc…
Klinefelters syndrome is what type of abnormality?
The normal diploid complement of 46 ch…
Euploidy
the number of chromosomes is different…
Aneuploidy
64 terms
genomics
Genome
genomics
First genome sequenced
First cellular genome sequenced
-Entire complement of genetic information... -Includes genes, re…
Discipline of mapping, sequencing, analyzing, and comparing g…
RNA virus MS2 ... 3.5kb
Haemophilus influenzae ... -1 million bp
Genome
-Entire complement of genetic information... -Includes genes, re…
genomics
Discipline of mapping, sequencing, analyzing, and comparing g…
23 terms
genomics
genomics
bioinformatics
genome
metagenomics
the study of whole sets of genes and their interactions
is the application of computational methods to the storage an…
the whole hereditary information of an organism that is encod…
approach in which DNA from a group of species in an environme…
genomics
the study of whole sets of genes and their interactions
bioinformatics
is the application of computational methods to the storage an…
23 terms
Genomics
first microorg sequenced and why
genome
genomic
recombinant DNA tech
H influenzae since so short!!
entire DNA content of organism
study of genome... - structure/ org of genes... - evolution
allows us to piece together DNA segments
first microorg sequenced and why
H influenzae since so short!!
genome
entire DNA content of organism
29 terms
Genomics
structural genomics
comparative genomics
functional genomics
genome shotgunning
sequencing+analysis of genome information
infer sequence function, evolution of genome, where do new ge…
understand what genes do, how they form networks
-fragment genome with 10x amount of sequence... -make small 2kb…
structural genomics
sequencing+analysis of genome information
comparative genomics
infer sequence function, evolution of genome, where do new ge…
10 terms
Genomics
transcriptome
genome
polymorphism
SNP
set of expressed genes
complete set of genes of an organism
simultaneous occurrence in the population of genomes showing…
single nucleotide polymorphism; responsible for most of the g…
transcriptome
set of expressed genes
genome
complete set of genes of an organism
15 terms
Genomics
Diagnosis of sickle cell disease
Sickle cell treatment
Immunological complications of sickle…
Elevated bilirubin in neonates
Rapid test - treat blood with deoxygenating chemical --> cell…
Hydroxyurea... Folic acid supplementation... Pain relief... Antibiotic…
Sluggish circulation through the spleen, high rates of O2 ext…
Fairly common - it takes time for a newborn's liver to be abl…
Diagnosis of sickle cell disease
Rapid test - treat blood with deoxygenating chemical --> cell…
Sickle cell treatment
Hydroxyurea... Folic acid supplementation... Pain relief... Antibiotic…
45 terms
Genomics
simple trait
oligogenic
polygenic
quantitative trait loci
-one/few loci contribute... -discrete, categorical P... -monogenic…
-few loci contribute... -discrete P... -influence of individual loc…
-quantitative ... -many loci... -continuous P... -sometimes can identi…
polygenic trait
simple trait
-one/few loci contribute... -discrete, categorical P... -monogenic…
oligogenic
-few loci contribute... -discrete P... -influence of individual loc…
11 terms
Genomics
Mutation
Mutagen
Mutation in gamete
Point mutations
error in base sequence carried through DNA replication
external agents that cause mutation
may be hereditary disease or birth defect
change of one base (can lead to SNiP)
Mutation
error in base sequence carried through DNA replication
Mutagen
external agents that cause mutation
34 terms
Genomics
comparative genomics
functional genomics
bioinformatics
F
genomics that considers the genomes of closely and distantly…
the use of an expanding variety of methods, including reverse…
the analysis of the information content of entire genomes. In…
T/F a larger genome equates to a more complex organism
comparative genomics
genomics that considers the genomes of closely and distantly…
functional genomics
the use of an expanding variety of methods, including reverse…
26 terms
Genomics
Sequencing
Shot Gun Sequencing
Second-Generation DNA Sequencing
Third-Generation DNA Sequencing
determining the base order of an organisms DNA or RNA
Construction of a genomic library ... The genome is broken into…
Method using massively parallel methods. ... Multiple samples ar…
involved the sequencing of single molecules of DNA
Sequencing
determining the base order of an organisms DNA or RNA
Shot Gun Sequencing
Construction of a genomic library ... The genome is broken into…
20 terms
Genomics
Functional genomics
Structural genomics
Comparative genomics
Epigenomics
characterization of genes and their mRNA and protein products
the dissection of the architectural features of genes and chr…
the evolutionary relationships between the genes and proteins…
DNA methylation patterns, imprinting, DNA packaging
Functional genomics
characterization of genes and their mRNA and protein products
Structural genomics
the dissection of the architectural features of genes and chr…
62 terms
GENOMICS
GENOMICS
GENETIC MAP
SEQUENCE-TAGGED SITE
PHYSICAL MAPS
study of genome or ALL the DNA of an organism
genetic crosses and frequency of crossing over are used with…
unique genetic markers in genome
more detailed information about genetic markers obtained from…
GENOMICS
study of genome or ALL the DNA of an organism
GENETIC MAP
genetic crosses and frequency of crossing over are used with…
50 terms
Genomics
Biotechnology
Gene technology
Synthetic biology
restriction endonucleases
Use of living organisms in industrial processes. ex: fermenta…
use of recombinant DNA (single DNA molecular from two sources…
refers to biotechnology and gene technology. the (re)design a…
cutting occurs at restriction sites
Biotechnology
Use of living organisms in industrial processes. ex: fermenta…
Gene technology
use of recombinant DNA (single DNA molecular from two sources…
32 terms
Genomics
genetic maps
physical maps
restriction maps
FISH
relative location of genes, recombination frequency
actual location of genes; restriction maps, FISH, STS
DNA cut with restriction enzymes and banding pattern analyzed
fluorescence in situ hybridization; large scale maps, low res…
genetic maps
relative location of genes, recombination frequency
physical maps
actual location of genes; restriction maps, FISH, STS
8 terms
Genomics
aneuploidy
intrinsic cause
alkaptonuria
3.3 billion
duplication or deletion of chromosomal components
mutations in genes cause or presdispose us to many types of d…
condition where urine turns black when exposed to air
number of base pairs in the human genome
aneuploidy
duplication or deletion of chromosomal components
intrinsic cause
mutations in genes cause or presdispose us to many types of d…
Genomics
Shotgun steps
advantages of shotgun
disadvantages of shotgun
CBC steps
DNA denaturation, primer annealed, dNTP and DDNTP added, gel…
fast, minimal DNA needed, less expensive
reliant on software, errors possible, reference genome needed…
genome broken up, chunks location mapped, inserted into BACS,…
Shotgun steps
DNA denaturation, primer annealed, dNTP and DDNTP added, gel…
advantages of shotgun
fast, minimal DNA needed, less expensive
151 terms
Genomics
Genome
Chromosome
Gregor Mendel
Hershey and Chase
An organisms complete haploid complement of DNA... -Organisms ca…
A continuous pieces of DNA in a single compartment
Establishes laws of inheritance
Show DNA is genetic material
Genome
An organisms complete haploid complement of DNA... -Organisms ca…
Chromosome
A continuous pieces of DNA in a single compartment
8 terms
genomics
reciprocal translocation diseases
transposons
LINES
SINES
burkitts lymphoma t(8;14) cymc... myelogenous leukemia t(9;22)…
mobile elements of DNA... two classes lines and sines
occupy 20% of the genome... migrate via reverse transcriptase/e…
short sequences comprise 13% of genome... most abundant are Alu…
reciprocal translocation diseases
burkitts lymphoma t(8;14) cymc... myelogenous leukemia t(9;22)…
transposons
mobile elements of DNA... two classes lines and sines
72 terms
Genomics
Protein folding/binding
Properties of A.A
x-ray crystallography
NMR
1. Disulfide linkage... H-bond... Electrostatic interactions... Hydrop…
Size ... charge ... polarity... Aromaticity... Hydrophobicity/ nonpolar... c…
Grow a crystal... data collection... compute amp. and phases... Calcul…
Nuclear Magnetic Resonance... 1H,13C,15N,31P... Intramolecular inte…
Protein folding/binding
1. Disulfide linkage... H-bond... Electrostatic interactions... Hydrop…
Properties of A.A
Size ... charge ... polarity... Aromaticity... Hydrophobicity/ nonpolar... c…
19 terms
Genomics
Genomics
Applications of Genomics
First draft of the human genome sequence
Some findings of the Human Genome Proj…
the study of an organism's complete genome DNA sequencing
-Molecular medicine: improved diagnosis of diseases and treat…
2000 ... -public: sponsored by NIH and DOE... -Private: Celera Geno…
-the human genome contains a little more than 3 billion base…
Genomics
the study of an organism's complete genome DNA sequencing
Applications of Genomics
-Molecular medicine: improved diagnosis of diseases and treat…
46 terms
Genomics
Xist
snoRNAs
miRNAs
miRNA cancer pathway
16,500 nt, lncRNA responsible for X-chromosome inacctivation…
small, nucleolar rRNA processing( cleavage and modification),…
regulation of gene expression in transcription and post-trans…
CpG island hypermethylation leads to miR-200 silencing, leads…
Xist
16,500 nt, lncRNA responsible for X-chromosome inacctivation…
snoRNAs
small, nucleolar rRNA processing( cleavage and modification),…
18 terms
Genomics
Mendelian traits
Carrier
Hemizygous
Autosomal dominant
Inherited traits attributed to single genes
Being heterozygous for a specific recessive trait and not sho…
Have only one copy of a gene ... (Mostly occurs in sex linked tr…
Trait expressed witu one copy of a gene... 50% chance of passing…
Mendelian traits
Inherited traits attributed to single genes
Carrier
Being heterozygous for a specific recessive trait and not sho…
Genomics
Transcription
Translation
Topoisonerase
DNA Helicase
DNA to RNA
RNA to protein
Relaxes DNA from its supercoiled nature
Separates the two DNA strands at the replication fork
Transcription
DNA to RNA
Translation
RNA to protein
15 terms
Genomics
Annotation
Bioinformatics
high-throughput sequencing
Single Nucleotide Polymorphism (SNP)
the process of assigning biological function to ... sequences wi…
the study of information content of genomes
Rapidly sequencing large amounts of DNA
is where alleles differ from each other by the sequence of on…
Annotation
the process of assigning biological function to ... sequences wi…
Bioinformatics
the study of information content of genomes
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