Comparative Gene-Expression Analysis I: Hybridization-based techniques (0309)

索引

00:00 1.
index 1
00:25 2.
Question
00:44 3.
Sample Acquisition and Nucleic Acid Extraction
04:12 4.
QuestionThere were 50 µL RNA samples. You added 2 µL RNA sample to 78 µL sterile water and measured the optical density of your sample at a UV wavelength of 260 nm. If the absorbance reading was 0.08, what was the initial amount of your RNA sample?6.4 µg
05:50 5.
Methods to Check NA Quality1
07:58 6.
QuestionWhen you check the integrity of mRNA, why do you check the integrity of ribosomal RNA (28S and 18S rRNA)?
08:25 7.
Methods to Check NA Quality2
10:26 8.
RIN－RNA Integrity Number
13:16 9.
Methods to Check NA Quality3
16:45 10.
Methods to Check RNA Quality4
18:02 11.
Steps for Microarray Experiment
18:40 12.
Sample Amplification / Labeling
18:50 13.
In Vitro Transcription
19:49 14.
Steps for Microarray Experiment
20:08 15.
Hybridization & Scanning
20:24 16.
Steps for Microarray Experiment
21:18 17.
Visual inspection of array features
23:01 18.
Box plots consist of boxes with a central line and two tailsCentral line: median of the dataUpper (seventy-fifth percentile, Q3) and lower quartile (twenty-fifth percentile, Q1) Ends of the whiskers:1.5x IQR (interquartile range) Max or min value within 1
25:50 19.
Examples of Bad Slide Quality
27:30 20.
QuestionWhat are the advantages of using Illumina bead arrays?
28:47 21.
Steps for Microarray Experiment
30:09 22.
Normalization1
33:14 23.
Normalization2
36:02 24.
Normalization3
40:22 25.
Single Channel Normalization and Scaling
41:38 26.
Summarization
43:12 27.
Visualization Tools for Microarray Analysis
44:38 28.
Heat Map and Dendrogram
46:09 29.
Violin Plot
47:20 30.
Scatter Plot
49:30 31.
MA Plot
49:53 32.
Volcano plot
54:27 33.
Bar Chart
58:16 34.
Line Graph
1:00:53 35.
Pie Chart
1:01:51 36.
Venn Diagram
1:03:07 37.
Starburst Plot
1:03:59 38.
Visualization of Gene Distribution
1:06:46 39.
Visualization of Gene Distribution
1:10:06 40.
PCA and MDS
1:12:35 41.
MDS (Multidimensional Scaling)Principal Coordinate Analysis (PCoA)
1:15:11 42.
Correspondence Analysis (CA)
1:15:33 43.
QuestionIf you want to check data quality of microarray experiments, which graph will not be used? Scatter plot of PCAHeat mapBox plotVenn diagram
1:16:28 44.
Steps for Microarray Experiment
1:16:37 45.
Precision vs Accuracy
1:20:04 46.
Confusion Matrix (混淆矩陣)
1:26:33 47.
Sensitivity vs Specificity
1:27:45 48.
Positive Predictive Value (PPV) vs Negative Predictive Value (NPV)
1:28:53 49.
Precision (PPV) vs Recall (Sensitivity)
1:29:25 50.
Accuracy Paradox
1:31:53 51.
F1 Score
1:33:23 52.
Alpha vs Beta value
1:34:50 53.
Power as a Function of Alpha and Sample Size
1:37:32 54.
Sample Size Calculation
1:38:41 55.
How to Decide the Cutpoint?
1:39:44 56.
Contradiction Between Sensitivity & Specificity
1:42:59 57.
Receiver Operating CharacteristicCurve
1:45:06 58.
Receiver Operating CharacteristicCurve
1:45:41 59.
Summary of Statistics

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討論

00:00 1.
index 1
00:25 2.
Question
00:44 3.
Sample Acquisition and Nucleic Acid Extraction
04:12 4.
QuestionThere were 50 µL RNA samples. You added 2 µL RNA sample to 78 µL sterile water and measured the optical density of your sample at a UV wavelength of 260 nm. If the absorbance reading was 0.08, what was the initial amount of your RNA sample?6.4 µg
05:50 5.
Methods to Check NA Quality1
07:58 6.
QuestionWhen you check the integrity of mRNA, why do you check the integrity of ribosomal RNA (28S and 18S rRNA)?
08:25 7.
Methods to Check NA Quality2
10:26 8.
RIN－RNA Integrity Number
13:16 9.
Methods to Check NA Quality3
16:45 10.
Methods to Check RNA Quality4
18:02 11.
Steps for Microarray Experiment
18:40 12.
Sample Amplification / Labeling
18:50 13.
In Vitro Transcription
19:49 14.
Steps for Microarray Experiment
20:08 15.
Hybridization & Scanning
20:24 16.
Steps for Microarray Experiment
21:18 17.
Visual inspection of array features
23:01 18.
Box plots consist of boxes with a central line and two tailsCentral line: median of the dataUpper (seventy-fifth percentile, Q3) and lower quartile (twenty-fifth percentile, Q1) Ends of the whiskers:1.5x IQR (interquartile range) Max or min value within 1
25:50 19.
Examples of Bad Slide Quality
27:30 20.
QuestionWhat are the advantages of using Illumina bead arrays?
28:47 21.
Steps for Microarray Experiment
30:09 22.
Normalization1
33:14 23.
Normalization2
36:02 24.
Normalization3
40:22 25.
Single Channel Normalization and Scaling
41:38 26.
Summarization
43:12 27.
Visualization Tools for Microarray Analysis
44:38 28.
Heat Map and Dendrogram
46:09 29.
Violin Plot
47:20 30.
Scatter Plot
49:30 31.
MA Plot
49:53 32.
Volcano plot
54:27 33.
Bar Chart
58:16 34.
Line Graph
1:00:53 35.
Pie Chart
1:01:51 36.
Venn Diagram
1:03:07 37.
Starburst Plot
1:03:59 38.
Visualization of Gene Distribution
1:06:46 39.
Visualization of Gene Distribution
1:10:06 40.
PCA and MDS
1:12:35 41.
MDS (Multidimensional Scaling)Principal Coordinate Analysis (PCoA)
1:15:11 42.
Correspondence Analysis (CA)
1:15:33 43.
QuestionIf you want to check data quality of microarray experiments, which graph will not be used? Scatter plot of PCAHeat mapBox plotVenn diagram
1:16:28 44.
Steps for Microarray Experiment
1:16:37 45.
Precision vs Accuracy
1:20:04 46.
Confusion Matrix (混淆矩陣)
1:26:33 47.
Sensitivity vs Specificity
1:27:45 48.
Positive Predictive Value (PPV) vs Negative Predictive Value (NPV)
1:28:53 49.
Precision (PPV) vs Recall (Sensitivity)
1:29:25 50.
Accuracy Paradox
1:31:53 51.
F1 Score
1:33:23 52.
Alpha vs Beta value
1:34:50 53.
Power as a Function of Alpha and Sample Size
1:37:32 54.
Sample Size Calculation
1:38:41 55.
How to Decide the Cutpoint?
1:39:44 56.
Contradiction Between Sensitivity & Specificity
1:42:59 57.
Receiver Operating CharacteristicCurve
1:45:06 58.
Receiver Operating CharacteristicCurve
1:45:41 59.
Summary of Statistics

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Comparative Gene-Expression Analysis I: Hybridization-based techniques (0309)

長度: 1:47:36, 瀏覽: 885, 最近修訂: 2021-03-10

00:00 1.
index 1
00:25 2.
Question
00:44 3.
Sample Acquisition and Nucleic Acid Extraction
04:12 4.
QuestionThere were 50 µL RNA samples. You added 2 µL RNA sample to 78 µL sterile water and measured the optical density of your sample at a UV wavelength of 260 nm. If the absorbance reading was 0.08, what was the initial amount of your RNA sample?6.4 µg
05:50 5.
Methods to Check NA Quality1
07:58 6.
QuestionWhen you check the integrity of mRNA, why do you check the integrity of ribosomal RNA (28S and 18S rRNA)?
08:25 7.
Methods to Check NA Quality2
10:26 8.
RIN－RNA Integrity Number
13:16 9.
Methods to Check NA Quality3
16:45 10.
Methods to Check RNA Quality4
18:02 11.
Steps for Microarray Experiment
18:40 12.
Sample Amplification / Labeling
18:50 13.
In Vitro Transcription
19:49 14.
Steps for Microarray Experiment
20:08 15.
Hybridization & Scanning
20:24 16.
Steps for Microarray Experiment
21:18 17.
Visual inspection of array features
23:01 18.
Box plots consist of boxes with a central line and two tailsCentral line: median of the dataUpper (seventy-fifth percentile, Q3) and lower quartile (twenty-fifth percentile, Q1) Ends of the whiskers:1.5x IQR (interquartile range) Max or min value within 1
25:50 19.
Examples of Bad Slide Quality
27:30 20.
QuestionWhat are the advantages of using Illumina bead arrays?
28:47 21.
Steps for Microarray Experiment
30:09 22.
Normalization1
33:14 23.
Normalization2
36:02 24.
Normalization3
40:22 25.
Single Channel Normalization and Scaling
41:38 26.
Summarization
43:12 27.
Visualization Tools for Microarray Analysis
44:38 28.
Heat Map and Dendrogram
46:09 29.
Violin Plot
47:20 30.
Scatter Plot
49:30 31.
MA Plot
49:53 32.
Volcano plot
54:27 33.
Bar Chart
58:16 34.
Line Graph
1:00:53 35.
Pie Chart
1:01:51 36.
Venn Diagram
1:03:07 37.
Starburst Plot
1:03:59 38.
Visualization of Gene Distribution
1:06:46 39.
Visualization of Gene Distribution
1:10:06 40.
PCA and MDS
1:12:35 41.
MDS (Multidimensional Scaling)Principal Coordinate Analysis (PCoA)
1:15:11 42.
Correspondence Analysis (CA)
1:15:33 43.
QuestionIf you want to check data quality of microarray experiments, which graph will not be used? Scatter plot of PCAHeat mapBox plotVenn diagram
1:16:28 44.
Steps for Microarray Experiment
1:16:37 45.
Precision vs Accuracy
1:20:04 46.
Confusion Matrix (混淆矩陣)
1:26:33 47.
Sensitivity vs Specificity
1:27:45 48.
Positive Predictive Value (PPV) vs Negative Predictive Value (NPV)
1:28:53 49.
Precision (PPV) vs Recall (Sensitivity)
1:29:25 50.
Accuracy Paradox
1:31:53 51.
F1 Score
1:33:23 52.
Alpha vs Beta value
1:34:50 53.
Power as a Function of Alpha and Sample Size
1:37:32 54.
Sample Size Calculation
1:38:41 55.
How to Decide the Cutpoint?
1:39:44 56.
Contradiction Between Sensitivity & Specificity
1:42:59 57.
Receiver Operating CharacteristicCurve
1:45:06 58.
Receiver Operating CharacteristicCurve
1:45:41 59.
Summary of Statistics

位置

資料夾名稱

2021

發表人

賴亮全

單位

賴亮全教授

建立

2021-03-09 16:21:10

最近修訂

2021-03-10 13:43:59

長度

1:47:36