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01:29
1.
Tree of RNA Types
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00:46
2.
Non-coding RNA
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02:20
3.
Major Types of RNA endoribonucleases
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02:31
4.
Comparative Gene-expression Analysis
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01:10
5.
Question:Which hybridization technique can be used to detect the amount of polysaccharide?Eastern blottingWestern blottingSouthern blottingNorthern blotting
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03:50
6.
Agarose gels to resolve large fragments of DNA Polyacrylamide gelsto separate shorter nucleic acids, generally in the range of 1−1000 base pairs, based on the concentration used Gels without a denaturant (e.g., SDS): native gelsSecondary structure affects
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00:58
7.
Blurry bands Too much DNA (100−250 ng/mm well width) Too much saltBands in the wrong place Heat nucleic acids before running on a native gelRun gel >20 V/cm ( run gel slowly sharper bands)Gel temp. >30 °CLoading buffer floats away Some salts built up i
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00:41
8.
Question
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01:54
9.
Hybridization-based techniques1
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03:04
10.
Northen blotting
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02:11
11.
Hybridization-based techniques2
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00:34
12.
Microarray Platforms
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00:55
13.
Advantages:Favor small sample sizeHigh throughput: gather data on thousands of genes (genome) in a single experimentQuantitative analysisApplication:Gene expressionGenotyping-polymorphisms (SNP) and copy number variationBinding site identification: ChIP-o
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00:59
14.
High Throughput of Traditional Experiment
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01:36
15.
Steps for Microarray Experiment
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01:16
16.
Overview of the stages
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00:38
17.
Guidelines
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00:12
18.
Microarray Platforms
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00:30
19.
In-House Spotted Arrays
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05:04
20.
microarray animation
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00:14
21.
URL for Building Microarrayer
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01:01
22.
picture of arrayer
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01:58
23.
microarray arrayer video
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00:21
24.
HEEBO & MEEBO Genome Sets
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00:51
25.
Microarray Platforms
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02:34
26.
Prespotted Array Slides
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00:03
27.
Question
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00:58
28.
Phosphoamidite Reaction
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01:34
29.
Feature (Spot) Morphology
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03:15
30.
QuestionWhy did the samples need to be co-hybridized onto the same slide in two color platform?To reduce reagent costTo minimize microarray numberTo normalize unequal spot sizeTo simplify experimental protocol
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01:38
31.
Microarray Platforms
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00:32
32.
Affymetrix
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01:09
33.
Probe Set and Probe Pair
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04:52
34.
CheneChip – Affymetrix
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00:58
35.
Overview of Target preparation
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02:17
36.
In Vitro Transcription1
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00:19
37.
In Vitro Transcription2
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01:08
38.
QuestionIn DNA structure, coding strand (5’ 3’) is also calledWatson strandAnti-sense strandTemplate strandCrick strand
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06:16
39.
Anti-Sense RNA (Complementary RNA)
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00:34
40.
Overview of target preparation
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00:45
41.
QuestionThe purpose of fragmentation during the process of making cRNA is to reduceContaminationCross-hybridizationAmplification copiesFluorescent intensity
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00:57
42.
Before Hybridization – cRNA Fragmentation1
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01:14
43.
Microarray Platforms
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00:26
44.
Maskless Array Synthesis – Nimblegen
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00:08
45.
Digital Micromirror Device
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00:51
46.
Maskless Array Synthesis
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00:32
47.
QuestionWhat similarities and differences are there in manufacturing microarrays between Affymetrix and NimbleGen?
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00:08
48.
Microarray Platforms
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01:05
49.
BeadChip--Illumina
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01:56
50.
Bead Preparation and Array Production
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00:15
51.
Bead Array: Microwell Fabrication
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01:13
52.
BeadChips
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00:48
53.
Bead Design
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05:36
54.
Decoding Randomly Ordered Bead Arrays
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00:40
55.
Bead Decoding Example: 16 Bead Types
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01:47
56.
BeadChip Products
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01:28
57.
Types of Gene Expression Assays
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03:23
58.
Types of Gene Expression Assays
-
00:27
59.
DASL Labeling1
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00:25
60.
DASL Labeling2
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00:18
61.
Whole Genome DASL Workflow
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00:57
62.
QuestionWhat is the major differences of Illumina bead arrays as compared to other platforms?
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00:59
63.
MicroArray Quality Control (MAQC) Project
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00:35
64.
QuestionWhich value of same samples is smaller?Standard deviation (SD)Standard error of the mean (SEM)
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03:46
65.
Coefficient of Variation
-
01:02
66.
Repeatability of Expression Signal Within Test Sites
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01:01
67.
Interplatform Data Comparability
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04:52
68.
Scatter Plot
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01:47
69.
Correlation Between Microarray And TaqMan Data
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00:43
70.
QuestionWhich factors will you consider to choose microarray platform? QualityPriceTurn-over rateAvailabilityAll of them
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01:47
71.
Decoding Randomly Ordered Bead Arrays