Isaiah M. Castaneda Week 12: Difference between revisions

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[[BIOL368/F11:Week_12]]
[[BIOL368/F11:Week_12]]
=== Master Spreadsheet for Week 13 Lab ===
[[Media:H_pylori_Master_20111130_KD.xls | H_pylori_Master_20111130_KD.xls]]


===Link to all files from Douillard paper===
===Link to all files from Douillard paper===
Line 11: Line 15:
===Readme's===
===Readme's===


[[Media:E-BUGS-78.README.txt|Experiment E-BUGS-78]]
*[[Media:E-BUGS-78.README.txt|Experiment E-BUGS-78]]


[[Media:A-BUGS-18.README.txt|Array A-BUGS-18]]
===Processed===
*[[Media:DBAD_32788.txt]]
*[[Media:DBAD_32789.txt]]
*[[Media:DBAD_32795.txt]]
*[[Media:E-BUGS-78-processed-data-1757476218.txt]]
*[[Media:E-BUGS-78-processed-data-1757476240.txt]]
*[[Media:E-BUGS-78-processed-data-1757476352.txt]]


===Processed===
===Raw===
[[Media:DBAD_32788.txt]]
*[[Media:MBAD_32054.txt]]
[[Media:DBAD_32789.txt]]
*[[Media:MBAD_32055.txt]]
[[Media:DBAD_32795.txt]]
*[[Media:MBAD_32056.txt]]
[[Media:E-BUGS-78-processed-data-1757476218.txt]]
*[[Media:MBAD_32057.txt]]
[[Media:E-BUGS-78-processed-data-1757476240.txt]]
*[[Media:MBAD_32058.txt]]
[[Media:E-BUGS-78-processed-data-1757476352.txt]]
*[[Media:MBAD_32059.txt]]
*[[Media:MBAD_32062.txt]]
*[[Media:MBAD_32063.txt]]
*[[Media:MBAD_32064.txt]]
*[[Media:MBAD_32065.txt]]
*[[Media:MBAD_32066.txt]]
*[[Media:MBAD_32067.txt]]
*[[Media:MBAD_32068.txt]]
*[[Media:MBAD_32069.txt]]
*[[Media:MBAD_32070.txt]]
*[[Media:MBAD_32071.txt]]
*[[Media:MBAD_32074.txt]]
*[[Media:MBAD_32075.txt]]
*[[Media:MBAD_32080.txt]]
*[[Media:MBAD_32081.txt]]
*[[Media:MBAD_32084.txt]]
*[[Media:MBAD_32085.txt]]
 
===.sdrf.txt file===
*[[Media:E-BUGS-78.sdrf.txt]]
 
===Array Files===
*[[Media:A-BUGS-18.README.txt|Array A-BUGS-18]]
*[[Media:A-BUGS-18.adf.xls]]
 
===Cy5===
*hp0906KO total RNA (C1)
:[[Media:MBAD_32063.txt|MBAD_32063.txt]]
*CCUG17874 total RNA (C1)
:[[Media:MBAD_32085.txt|MBAD_32085.txt]]
*hp0906KO total RNA (B1)
:[[Media:MBAD_32065.txt|MBAD_32065.txt]]
*hp0906KO total RNA (A1)
:[[Media:MBAD_32067.txt|MBAD_32067.txt]]
*hp0958 KO total RNA (B1)
:[[Media:MBAD_32059.txt|MBAD_32059.txt]]
*hp0958 KO total RNA (A1)
:[[Media:MBAD_32057.txt|MBAD_32057.txt]]
*CCUG17874 total RNA (B1)
:[[Media:MBAD_32075.txt|MBAD_32075.txt]]
*CCUG17874 total RNA (A1)
:[[Media:MBAD_32081.txt|MBAD_32081.txt]]
*hp0958 KO total RNA (C1)
:[[Media:MBAD_32055.txt|MBAD_32055.txt]]
*CCUG17874 gDNA (B1)
:[[Media:MBAD_32069.txt|MBAD_32069.txt]]
*CCUG17874 gDNA (A1)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23772
:[[Media:MBAD_32081.txt|MBAD_32081.txt]]
 
===Cy3===
*CCUG17874 gDNA (A3)
:[[Media:MBAD_32062.txt|MBAD_32062.txt]]
*CCUG17874 gDNA (A3)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
:[[Media:MBAD_32084.txt|MBAD_32084.txt]]
*CCUG17874 gDNA (A2)
:[[Media:MBAD_32064.txt|MBAD_32064.txt]]
*CCUG17874 gDNA (A1)
:[[Media:MBAD_32067.txt|MBAD_32067.txt]]
*NCTC26695 gDNA (B1)
:[[Media:MBAD_32074.txt|MBAD_32074.txt]]
*CCUG17874 gDNA (A5)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
:[[Media:MBAD_32058.txt|MBAD_32058.txt]]
*NCTC26695 gDNA (A1)
:[[Media:MBAD_32070.txt|MBAD_32070.txt]]
*CCUG17874 gDNA (A4)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
:[[Media:MBAD_32056.txt|MBAD_32056.txt]]
*CCUG17874 gDNA (A2)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
:[[Media:MBAD_32068.txt|MBAD_32068.txt]]
*CCUG17874 gDNA (A1)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
:[[Media:MBAD_32080.txt|MBAD_32080.txt]]
*CCUG17874 gDNA (A6)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
:[[Media:MBAD_32054.txt|MBAD_32054.txt]]
 
===Hybridizations===
*Cy5 hp0906KO (C1) with Cy3 CCUG17874 (A3)              →  Hyb:32525
*Cy3 CCUG17874 (A3)-23856 with Cy5 CCUG17874 (C1)        →  Hyb:32519
*Cy5 hp0906KO (B1) with Cy3 CCUG17874 (A2)              →  Hyb:32524
*Cy3 CCUG17874 (A1) with Cy5 hp0906KO (A1)              →  Hyb:32523
*Cy5 CCUG17874 (B1) with Cy3 NCTC26695 (B1)              →  Hyb:32528
*Cy3 CCUG17874 (A5) with Cy5 hp0958 KO (B1)              →  Hyb:32521
*Cy3 NCTC26695 (A1) with Cy5 CCUG17874 (A1)              →  Hyb:32526
*Cy5 hp0958 KO (A1) with Cy3 CCUG17874 (A4)              →  Hyb:32520
*Cy3 CCUG17874 (A2)-23855 with Cy5 CCUG17874 (B2)-23817  →  Hyb:35218
*Cy3 CCUG17874 (A1)-23769 with Cy5 CCUG17874 (A1)-23814  →  Hyb:32517
*Cy3 CCUG17874 (A6) with Cy5 hp0958 KO (C1)              →  Hyb:32522

Latest revision as of 09:31, 30 November 2011

user:Isaiah M. Castaneda

Template: Isaiah M. Castaneda]

BIOL368/F11:Week_12

Master Spreadsheet for Week 13 Lab

H_pylori_Master_20111130_KD.xls

Link to all files from Douillard paper

http://www.ebi.ac.uk/arrayexpress/files/E-BUGS-78

Readme's

Processed

Raw

.sdrf.txt file

Array Files

Cy5

  • hp0906KO total RNA (C1)
MBAD_32063.txt
  • CCUG17874 total RNA (C1)
MBAD_32085.txt
  • hp0906KO total RNA (B1)
MBAD_32065.txt
  • hp0906KO total RNA (A1)
MBAD_32067.txt
  • hp0958 KO total RNA (B1)
MBAD_32059.txt
  • hp0958 KO total RNA (A1)
MBAD_32057.txt
  • CCUG17874 total RNA (B1)
MBAD_32075.txt
  • CCUG17874 total RNA (A1)
MBAD_32081.txt
  • hp0958 KO total RNA (C1)
MBAD_32055.txt
  • CCUG17874 gDNA (B1)
MBAD_32069.txt
  • CCUG17874 gDNA (A1)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23772
MBAD_32081.txt

Cy3

  • CCUG17874 gDNA (A3)
MBAD_32062.txt
  • CCUG17874 gDNA (A3)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
MBAD_32084.txt
  • CCUG17874 gDNA (A2)
MBAD_32064.txt
  • CCUG17874 gDNA (A1)
MBAD_32067.txt
  • NCTC26695 gDNA (B1)
MBAD_32074.txt
  • CCUG17874 gDNA (A5)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
MBAD_32058.txt
  • NCTC26695 gDNA (A1)
MBAD_32070.txt
  • CCUG17874 gDNA (A4)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
MBAD_32056.txt
  • CCUG17874 gDNA (A2)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
MBAD_32068.txt
  • CCUG17874 gDNA (A1)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
MBAD_32080.txt
  • CCUG17874 gDNA (A6)__bugs.sgul.ac.uk:BuG@Sbase/BioSample:23768
MBAD_32054.txt

Hybridizations

  • Cy5 hp0906KO (C1) with Cy3 CCUG17874 (A3) → Hyb:32525
  • Cy3 CCUG17874 (A3)-23856 with Cy5 CCUG17874 (C1) → Hyb:32519
  • Cy5 hp0906KO (B1) with Cy3 CCUG17874 (A2) → Hyb:32524
  • Cy3 CCUG17874 (A1) with Cy5 hp0906KO (A1) → Hyb:32523
  • Cy5 CCUG17874 (B1) with Cy3 NCTC26695 (B1) → Hyb:32528
  • Cy3 CCUG17874 (A5) with Cy5 hp0958 KO (B1) → Hyb:32521
  • Cy3 NCTC26695 (A1) with Cy5 CCUG17874 (A1) → Hyb:32526
  • Cy5 hp0958 KO (A1) with Cy3 CCUG17874 (A4) → Hyb:32520
  • Cy3 CCUG17874 (A2)-23855 with Cy5 CCUG17874 (B2)-23817 → Hyb:35218
  • Cy3 CCUG17874 (A1)-23769 with Cy5 CCUG17874 (A1)-23814 → Hyb:32517
  • Cy3 CCUG17874 (A6) with Cy5 hp0958 KO (C1) → Hyb:32522
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