Hosuk:LabNotes/2015-1-30

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Decode and Analysis of CA12k_Nov2014_V4 and V7 test samples[edit]

Information[edit]

  • Samples
    • S1(V7) and S2(V4) done at 1/25
    • S5(V4) at 1/22



Notice[edit]

  • 3 sample dishes -
    • (1) S1_V7_012215: Padlock probe concentration 22.86 nM in 100uL Ampligase mix
    • (2) S2_V4_012215: Padlock probe concentration 18.67 nM in 100uL Ampligase mix
    • (2) S5_V4_012215: Padlock probe concentration 100 nM in 100uL Ampligase mix


  • Aligning Failed --> S1_V7_Pos1, S1_V7_Pos4, S5_V4_Pos1, S5_V4_Pos2 --> cannot be analyzed, I'll manually align and proceed analysis later
  • Miss-alignment(about 10 px off) --> S2_V4_Pos1, S2_V4_Pos4 --> cannot trust analyzed result, I'll manually align and proceed analysis later


Result : Files[edit]

  • Summary : Excel including 3 different analysis result by changing threshold value for '0' signal decision



File:CA12k Nov2014 Decode Result Table 2015-01-28.png


  • Images : All Rolonies
  • S1_V7_012215

File:CA12k Nov2014 Decode Result 2015-01-28 AllRolony S1 V7 012215.png


  • S2_V4_012215

File:CA12k Nov2014 Decode Result 2015-01-28 AllRolony S2 V4 012215.png


  • S5_V4_012715

File:CA12k Nov2014 Decode Result 2015-01-28 AllRolony S5 V4 012715.png


  • Images : Position of Mapped Genes
  • S1_V7_012215

File:CA12k Nov2014 Decode Result 2015-01-28 Mapping S1 V7 012215.png


  • S2_V4_012215

File:CA12k Nov2014 Decode Result 2015-01-28 Mapping S2 V4 012215.png


  • S5_V4_012715

File:CA12k Nov2014 Decode Result 2015-01-28 Mapping S5 V4 012715.png



Matlab code for this analysis[edit]