Exam #2 | BLD 430 - Molecular Lab Diagnostics, Quizzes of Biology

Class: BLD 430 - Molecular Lab Diagnostics; Subject: Biomedical Laboratory Diagnost; University: Michigan State University; Term: Spring 2013;

Typology: Quizzes

2012/2013

Uploaded on 03/20/2013

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TERM 1
Oligo nucleotide
DEFINITION 1
short, single-stranded DNA or RNA molecules
TERM 2
Peripheral Blood
DEFINITION 2
10-20 ugs/mL
TERM 3
RBC DNA
DEFINITION 3
There is no DNA in a Red Blood Cell
TERM 4
Fresh Tissue
DEFINITION 4
Hunk, must be quickly processed
TERM 5
Frozen Tissue
DEFINITION 5
Preserved[[Image:Frozen tissue array
block.jpg|300px|thumb|right|A Frozen Tissue Array Block]]
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Oligo nucleotide

short, single-stranded DNA or RNA molecules TERM 2

Peripheral Blood

DEFINITION 2 10-20 ugs/mL TERM 3

RBC DNA

DEFINITION 3 There is no DNA in a Red Blood Cell TERM 4

Fresh Tissue

DEFINITION 4 Hunk, must be quickly processed TERM 5

Frozen Tissue

DEFINITION 5 Preserved[[Image:Frozen tissue array block.jpg|300px|thumb|right|A Frozen Tissue Array Block]]

Fixed Tissue

For staining, heat fixed, cells are killed TERM 7

Temperature of Melting (Tm)

DEFINITION 7 2(AT)+4(CG) good for short sequences, approximate TERM 8

Nucleic Acid Isolation Main steps

DEFINITION 8

  1. Cell lysis2.Partition away proteins and lipids 3. extract nucleic acids TERM 9

Membrane

Lysis

DEFINITION 9 SDS- sodium dodecyl sulfatedisrupts membrane TERM 10

protein

removal

DEFINITION 10 Proeinase K chews up protein

Possible

contaminants

proteins lipidscarbsphenol TERM 17

Purity

DEFINITION 17 Good- 1.4-2260/ TERM 18

Ligase

DEFINITION 18 an enzyme that can catalyze the joining of two large molecules by forming a new chemical bondJOINS! between oligonucleotides TERM 19

Polymerase

DEFINITION 19 an enzyme whose central biological function is the synthesis of polymers of nucleic acids.elongates, reads and fills in the rest of the bases TERM 20

reverse transcriptase

DEFINITION 20 Reverse transcriptase is an enzyme used to generate complementary DNA (cDNA) from an RNA template, a process termed reverse transcription.runs opposite direction

Restriction endonuclease

A restriction enzyme is an enzyme that cuts DNA at specific recognition nucleotide sequences known as restriction sites.generates fragmentscuts dsDNA produces sticky/blunt ends TERM 22

exonuclease

DEFINITION 22 Exonucleases are enzymes that work by cleaving nucleotides one at a time from the end of a polynucleotide chain.removes any ds barriers TERM 23

phosphatase

DEFINITION 23 removes a phosphate group TERM 24

kinase

DEFINITION 24 adds a phosphoryl group TERM 25

terminal transferase

DEFINITION 25 adds bases to the 3' end of molecules

Steps to Electrophoresis

Castloadrun/ electrophoresis - supply currentStain document TERM 32

Buffers

DEFINITION 32 TAE TBE TERM 33

Stain with:

DEFINITION 33 Ethidium BromideSybrGreenSilverstain TERM 34

Ehtidium Bromide

DEFINITION 34 goes inbetween bases, interacts with but also binds TERM 35

SybrGreen

DEFINITION 35 binds to ds DNA doesnt interchelate

Silver Stain

proteins lower level of detection (picks up on very small amout) TERM 37

Pulsed Field

DEFINITION 37 Pulsed field gel electrophoresis is a technique used for the separation of large DNA molecules by applying an electric field that periodically changes direction to a gel matrix. TERM 38

single stranded conformational

polymorphism

DEFINITION 38 conformational difference of single-stranded nucleotide sequences of identical length as induced by differences in the sequences under certain experimental conditions TERM 39

heteroduplex

DEFINITION 39 A heteroduplex is a double-stranded molecule of nucleic acid originated through the genetic recombination of single complementary strands derived from different sources, such as from different homologous chromosomes or even from different organisms. TERM 40

RFLP

DEFINITION 40 In molecular biology, restriction fragment length polymorphism, or RFLP, is a technique that exploits variations in homologous DNA sequences.

in situ hybridization

In situ hybridization is a type of hybridization that uses a labeled complementary DNA or RNA strand (i.e., probe) to localize a specific DNA or RNA sequence in a portion or section of tissue (in situ), or, if the tissue is small enough (e.g. TERM 47

realtime PCR

DEFINITION 47 without gel- in a tubeuse fluorescent label- probe, binging dye TERM 48

cross over threshold

DEFINITION 48 has to cross this threshold at or before a certain number of cycles for it to be positive TERM 49

Chemical Sequencing

DEFINITION 49 enzymes cleave after specific base or base combos ---never used TERM 50

Chain termination Sequencing

DEFINITION 50 Sanger gilbert used ddNTP's dont have 3' hydroxyl doesn't allow extension

Sequencing tips

Sequence from the bottom upsmallest fragments are at the bottom TERM 52

pyrosequencing

DEFINITION 52 Everytime you ass a base, there is a phosphate that is lost and then captured to generate light where the light is measured TERM 53

Lab Operations Requirements

DEFINITION 53 specimen and ID integrity throughout the processqualification and responsibilities quality assurance plan proficiency testing TERM 54

Personnel Qualifications

DEFINITION 54 lab director- MD, PhD = they are ultimately responsible technical supervisor- make sure assays run right and trainClinical consultant- MD, PhD =communicate what results mean, what to runGeneral supervisor- technologist TERM 55

Three main phases of an assay

DEFINITION 55 preanalytic- prep, right test orderedanalytic- testing processpostanalytic- reporting results

Class III

high risk, requires pre-market approval *most molecular tests TERM 62

Second Classification for

Reagents

DEFINITION 62 1- general purpose 2-RUO- research use only3- IUO- investigational use only4- kits (class II and III)5- immunohistochemicals (I, II, III) 6- ASR- analyte specific reagents