Talk:20.109(S13):Transcript-level analysis (Day6)

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(New page: ==qPCR data== ===T/R=== The text file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. T...)
Current revision (08:45, 8 May 2013) (view source)
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===T/R===
===T/R===
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The text file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. The second is calculated when a separate threshold is made for each primer set. (T/R Purple, because your samples ran separately, there were not enough of them to make a per RNA threshold reasonable.)
+
The Excel file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. The second is calculated when a separate threshold is made for each primer set. (T/R Purple, because your samples ran separately, there were not enough of them to make a per RNA threshold reasonable.)
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[[Media:20109-S13_TR_qPCR.txt]]
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[[Media:20109-S13_TR_qPCR.xlsx]]
===W/F===
===W/F===
-
The text file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. The second is calculated when a separate threshold is made for each primer set.  
+
The Excel file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. The second is calculated when a separate threshold is made for each primer set.  
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[[Media:20109-S13_WF_qPCR.txt]]
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[[Media:20109-S13_WF_qPCR.xlsx]]
==qPCR section-wide curves==
==qPCR section-wide curves==
 +
 +
===T/R===
[[Image:S13_M3D5_TR_raw.jpg|thumb|400px|left|T/R section, Raw amplification curves]]
[[Image:S13_M3D5_TR_raw.jpg|thumb|400px|left|T/R section, Raw amplification curves]]
[[Image:S13_M3D5_TR_noiseband.jpg|thumb|400px|center|T/R section, Log-scale amplification curves with noise threshold]]
[[Image:S13_M3D5_TR_noiseband.jpg|thumb|400px|center|T/R section, Log-scale amplification curves with noise threshold]]
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[[Image:S13_M3D5_TR_18S-melt.jpg|thumb|300px|right|T/R section, Melt curves for 18 samples]]
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[[Image:S13_M3D5_TR_18S-melt.jpg|thumb|300px|right|T/R section, Melt curves for 18S samples]]
[[Image:S13_M3D5_TR_CNII-melt.jpg|thumb|300px|left|T/R section, Melt curves for CN II samples]]
[[Image:S13_M3D5_TR_CNII-melt.jpg|thumb|300px|left|T/R section, Melt curves for CN II samples]]
[[Image:S13_M3D5_TR_CNI-melt.jpg|thumb|300px|center|T/R section, Melt curves for CN II samples]]
[[Image:S13_M3D5_TR_CNI-melt.jpg|thumb|300px|center|T/R section, Melt curves for CN II samples]]
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 +
[[Image:S13_M3D5_TR_18S-noiseband.jpg|thumb|300px|right|T/R section, Amp curves for 18S samples]]
 +
[[Image:S13_M3D5_TR_CNII-noiseband.jpg|thumb|300px|left|T/R section, Amp curves for CN II samples]]
 +
[[Image:S13_M3D5_TR_CNI-noiseband.jpg|thumb|300px|center|T/R section, Amp curves for CN II samples]]
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<br style="clear:both;"/>
<br style="clear:both;"/>
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===W/F===
[[Image:S13_M3D5_WF_raw.jpg|thumb|400px|left|W/F section, Raw amplification curves]]
[[Image:S13_M3D5_WF_raw.jpg|thumb|400px|left|W/F section, Raw amplification curves]]
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[[Image:S13_M3D5_WF_CNII-melt.jpg|thumb|300px|left|W/F section, Melt curves for CN II samples]]
[[Image:S13_M3D5_WF_CNII-melt.jpg|thumb|300px|left|W/F section, Melt curves for CN II samples]]
[[Image:S13_M3D5_WF_CNI-melt.jpg|thumb|300px|center|W/F section, Melt curves for CN II samples]]
[[Image:S13_M3D5_WF_CNI-melt.jpg|thumb|300px|center|W/F section, Melt curves for CN II samples]]
 +
 +
[[Image:S13_M3D5_WF_18S-noiseband.jpg|thumb|300px|right|W/F section, Amp curves for 18S samples]]
 +
[[Image:S13_M3D5_WF_CNII-noiseband.jpg|thumb|300px|left|W/F section, Amp curves for CN II samples]]
 +
[[Image:S13_M3D5_WF_CNI-noiseband.jpg|thumb|300px|center|W/F section, Amp curves for CN II samples]]
 +
 +
<br style="clear:both;"/>
==Cross-group meetings==
==Cross-group meetings==
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===Scheme===
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===T/R Scheme===
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Red 1/Yellow 1  
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Red 1/Yellow 1: Marisol/Dominique
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Red 2/Blue 1
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Red 2/Blue 1: Nick/Justin
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Orange 1/Pink 2
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Orange 1/Platinum 2: Daphne/Katie
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Orange 2/Blue 2
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Platinum 1/Blue 2: Emily/Noa
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Yellow 2/Green 2
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Yellow 2/Green 2: Ebaa/Jesse
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Green 1/Purple 2
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Green 1/Purple 1:Nikki/Sarah
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Pink 1/Purple 1
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Orange 2/Purple 2: Stas/Mitali
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===T/R===
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===W/F Scheme===
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Blue 1/Platinum 2        
 +
*Emmanuel/Shanthi
 +
 
 +
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Blue 2/Green 2        
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*Divya/Steve
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 +
 +
Green 1/Platinum 1        
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*Kevin/Eric
 +
 
 +
 +
Yellow 1/Orange 2
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*Karinna/Katie
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 +
 +
Pink 2/Purple 1        
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*Alice/Zeinab
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 +
Purple 2/Orange 1
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*Jenny V./Ameila
 +
 
 +
 
 +
Yellow 2/Pink 1
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*Jenny W./Helen

Current revision

Contents

qPCR data

T/R

The Excel file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. The second is calculated when a separate threshold is made for each primer set. (T/R Purple, because your samples ran separately, there were not enough of them to make a per RNA threshold reasonable.)

Media:20109-S13_TR_qPCR.xlsx

W/F

The Excel file below contains all of the T/R data. Two different CP values are given. The first is calculated when all samples are thresholded at the same level. The second is calculated when a separate threshold is made for each primer set.

Media:20109-S13_WF_qPCR.xlsx

qPCR section-wide curves

T/R

T/R section, Raw amplification curves
T/R section, Raw amplification curves
T/R section, Log-scale amplification curves with noise threshold
T/R section, Log-scale amplification curves with noise threshold
T/R section, Melt curves for 18S samples
T/R section, Melt curves for 18S samples
T/R section, Melt curves for CN II samples
T/R section, Melt curves for CN II samples
T/R section, Melt curves for CN II samples
T/R section, Melt curves for CN II samples
T/R section, Amp curves for 18S samples
T/R section, Amp curves for 18S samples
T/R section, Amp curves for CN II samples
T/R section, Amp curves for CN II samples
T/R section, Amp curves for CN II samples
T/R section, Amp curves for CN II samples


W/F

W/F section, Raw amplification curves
W/F section, Raw amplification curves
W/F section, Log-scale amplification curves with noise threshold
W/F section, Log-scale amplification curves with noise threshold
W/F section, Melt curves for 18 samples
W/F section, Melt curves for 18 samples
W/F section, Melt curves for CN II samples
W/F section, Melt curves for CN II samples
W/F section, Melt curves for CN II samples
W/F section, Melt curves for CN II samples
W/F section, Amp curves for 18S samples
W/F section, Amp curves for 18S samples
W/F section, Amp curves for CN II samples
W/F section, Amp curves for CN II samples
W/F section, Amp curves for CN II samples
W/F section, Amp curves for CN II samples


Cross-group meetings

T/R Scheme

Red 1/Yellow 1: Marisol/Dominique

Red 2/Blue 1: Nick/Justin

Orange 1/Platinum 2: Daphne/Katie

Platinum 1/Blue 2: Emily/Noa

Yellow 2/Green 2: Ebaa/Jesse

Green 1/Purple 1:Nikki/Sarah

Orange 2/Purple 2: Stas/Mitali

W/F Scheme

Blue 1/Platinum 2

  • Emmanuel/Shanthi


Blue 2/Green 2

  • Divya/Steve


Green 1/Platinum 1

  • Kevin/Eric


Yellow 1/Orange 2

  • Karinna/Katie


Pink 2/Purple 1

  • Alice/Zeinab


Purple 2/Orange 1

  • Jenny V./Ameila


Yellow 2/Pink 1

  • Jenny W./Helen
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