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Perform data analysis on Reversed phase NEGATIVE ION MODE dataset in study ST001357
Choose experimental groups (required for Volcano plot, OPLSDA, Random Forest analyses)
Select 2 different experimental groups:
Select only groups with 3 or more replicates listed in parentheses
Group1
Sample type:alm mix in MQ neg (3)
Sample type:alm mix in MQ pos (3)
Sample type:alm mix in MQ pos (new vial) (1)
Sample type:MQ Blank neg (9)
Sample type:MQ Blank neg (07.31.18 rerun some samples, new aliquot) (1)
Sample type:MQ Blank neg (batch 1) (1)
Sample type:MQ Blank neg (batch 2, 07.30.18) (1)
Sample type:MQ Blank pos (HSST3#5, probe 3, 07.27.18) (1)
Sample type:UW D13B61 neg (1)
Sample type:UW D13B7 neg (1)
Sample type:UW D13B84 neg (1)
Sample type:UW D16B61 neg (1)
Sample type:UW D16B7 neg (1)
Sample type:UW D16B84 neg (1)
Sample type:UW D20B61 neg (2)
Sample type:UW D20B7 neg (2)
Sample type:UW D2B61 neg (2)
Sample type:UW D2B7 neg (2)
Sample type:UW D2B84 neg (1)
Sample type:UW D60B84 neg (1)
Sample type:UW D6B61 neg (1)
Sample type:UW D6B7 neg (1)
Sample type:UW D6B84 neg (1)
Sample type:UW D9B61 neg (1)
Sample type:UW D9B7 neg (1)
Sample type:UW D9B84 neg (1)
Sample type:UW N11B61 neg (1)
Sample type:UW N11B84 neg (1)
Sample type:UW N15B61-EIA neg (1)
Sample type:UW N15B61-EIA neg redo (1)
Sample type:UW N15B84 neg (1)
Sample type:UW N18B61 neg (1)
Sample type:UW N18B84 neg (1)
Sample type:UW N22B61 neg (1)
Sample type:UW N22B7 neg (1)
Sample type:UW N22B84 neg (1)
Sample type:UW N29B7 neg (1)
Sample type:UW N4B61 neg (2)
Sample type:UW N4B7 neg (2)
Sample type:UW N4B84 neg (1)
Sample type:UW N4B89 neg (1)
Sample type:UW N8B61 neg (1)
Sample type:UW N8B7 neg (1)
Sample type:UW O11B61-CTL neg (1)
Sample type:UW O11B61-CTL neg redo (1)
Sample type:UW O11B61 neg (1)
Sample type:UW O11B7-CTL neg (1)
Sample type:UW O11B7-CTL neg redo (1)
Sample type:UW O11B7 neg (1)
Sample type:UW O11B84-NO-CEN neg (1)
Sample type:UW O11B84 neg (1)
Sample type:UW O12B61neg (1)
Sample type:UW O13B61 neg (1)
Sample type:UW O13B7 neg (1)
Sample type:UW O14B61-CTL neg redo (1)
Sample type:UW O14B61 CTL neg (1)
Sample type:UW O14B61 neg (1)
Sample type:UW O14B7-CTL neg (1)
Sample type:UW O14B7-CTL neg redo (1)
Sample type:UW O14B7 neg (1)
Sample type:UW O16B7 neg (1)
Sample type:UW O16B84 neg (1)
Sample type:UW O18B61 neg (2)
Sample type:UW O18B7 neg (2)
Sample type:UW O18B84 CTL neg (1)
Sample type:UW O18B84 neg (1)
Sample type:UW O18B84_2 neg (1)
Sample type:UW O19B61 neg (1)
Sample type:UW O19B7 neg (1)
Sample type:UW O19B84 neg (1)
Sample type:UW O20B61 neg (1)
Sample type:UW O20B7 neg (1)
Sample type:UW O20B84 neg (2)
Sample type:UW O21B61 neg (2)
Sample type:UW O21B7 neg (2)
Sample type:UW O21B84 neg (2)
Sample type:UW O23B61 neg (1)
Sample type:UW O23B7 neg (1)
Sample type:UW O23B84 neg (1)
Sample type:UW O24B61 neg (1)
Sample type:UW O24B84 neg (1)
Sample type:UW O25B61 neg (1)
Sample type:UW O25B84 neg (1)
Sample type:UW O2B84 neg (1)
Sample type:UW O3B61 neg (1)
Sample type:UW O3B7 neg (1)
Sample type:UW O3B84 neg (1)
Sample type:UW O4B61 neg (2)
Sample type:UW O4B7 neg (2)
Sample type:UW O4B84 neg (2)
Sample type:UW O5B61 neg (1)
Sample type:UW O5B7 neg (1)
Sample type:UW O5B84 neg (1)
Sample type:UW O6B61 neg (1)
Sample type:UW O6B7 neg (1)
Sample type:UW O6B84 neg (1)
Sample type:UW pooled neg (22)
Sample type:UW pooled neg condition (17)
Sample type:UW pooled pos condition (1)
Sample type:UW pooled with spike neg (3)
Group2
Sample type:alm mix in MQ neg (3)
Sample type:alm mix in MQ pos (3)
Sample type:alm mix in MQ pos (new vial) (1)
Sample type:MQ Blank neg (9)
Sample type:MQ Blank neg (07.31.18 rerun some samples, new aliquot) (1)
Sample type:MQ Blank neg (batch 1) (1)
Sample type:MQ Blank neg (batch 2, 07.30.18) (1)
Sample type:MQ Blank pos (HSST3#5, probe 3, 07.27.18) (1)
Sample type:UW D13B61 neg (1)
Sample type:UW D13B7 neg (1)
Sample type:UW D13B84 neg (1)
Sample type:UW D16B61 neg (1)
Sample type:UW D16B7 neg (1)
Sample type:UW D16B84 neg (1)
Sample type:UW D20B61 neg (2)
Sample type:UW D20B7 neg (2)
Sample type:UW D2B61 neg (2)
Sample type:UW D2B7 neg (2)
Sample type:UW D2B84 neg (1)
Sample type:UW D60B84 neg (1)
Sample type:UW D6B61 neg (1)
Sample type:UW D6B7 neg (1)
Sample type:UW D6B84 neg (1)
Sample type:UW D9B61 neg (1)
Sample type:UW D9B7 neg (1)
Sample type:UW D9B84 neg (1)
Sample type:UW N11B61 neg (1)
Sample type:UW N11B84 neg (1)
Sample type:UW N15B61-EIA neg (1)
Sample type:UW N15B61-EIA neg redo (1)
Sample type:UW N15B84 neg (1)
Sample type:UW N18B61 neg (1)
Sample type:UW N18B84 neg (1)
Sample type:UW N22B61 neg (1)
Sample type:UW N22B7 neg (1)
Sample type:UW N22B84 neg (1)
Sample type:UW N29B7 neg (1)
Sample type:UW N4B61 neg (2)
Sample type:UW N4B7 neg (2)
Sample type:UW N4B84 neg (1)
Sample type:UW N4B89 neg (1)
Sample type:UW N8B61 neg (1)
Sample type:UW N8B7 neg (1)
Sample type:UW O11B61-CTL neg (1)
Sample type:UW O11B61-CTL neg redo (1)
Sample type:UW O11B61 neg (1)
Sample type:UW O11B7-CTL neg (1)
Sample type:UW O11B7-CTL neg redo (1)
Sample type:UW O11B7 neg (1)
Sample type:UW O11B84-NO-CEN neg (1)
Sample type:UW O11B84 neg (1)
Sample type:UW O12B61neg (1)
Sample type:UW O13B61 neg (1)
Sample type:UW O13B7 neg (1)
Sample type:UW O14B61-CTL neg redo (1)
Sample type:UW O14B61 CTL neg (1)
Sample type:UW O14B61 neg (1)
Sample type:UW O14B7-CTL neg (1)
Sample type:UW O14B7-CTL neg redo (1)
Sample type:UW O14B7 neg (1)
Sample type:UW O16B7 neg (1)
Sample type:UW O16B84 neg (1)
Sample type:UW O18B61 neg (2)
Sample type:UW O18B7 neg (2)
Sample type:UW O18B84 CTL neg (1)
Sample type:UW O18B84 neg (1)
Sample type:UW O18B84_2 neg (1)
Sample type:UW O19B61 neg (1)
Sample type:UW O19B7 neg (1)
Sample type:UW O19B84 neg (1)
Sample type:UW O20B61 neg (1)
Sample type:UW O20B7 neg (1)
Sample type:UW O20B84 neg (2)
Sample type:UW O21B61 neg (2)
Sample type:UW O21B7 neg (2)
Sample type:UW O21B84 neg (2)
Sample type:UW O23B61 neg (1)
Sample type:UW O23B7 neg (1)
Sample type:UW O23B84 neg (1)
Sample type:UW O24B61 neg (1)
Sample type:UW O24B84 neg (1)
Sample type:UW O25B61 neg (1)
Sample type:UW O25B84 neg (1)
Sample type:UW O2B84 neg (1)
Sample type:UW O3B61 neg (1)
Sample type:UW O3B7 neg (1)
Sample type:UW O3B84 neg (1)
Sample type:UW O4B61 neg (2)
Sample type:UW O4B7 neg (2)
Sample type:UW O4B84 neg (2)
Sample type:UW O5B61 neg (1)
Sample type:UW O5B7 neg (1)
Sample type:UW O5B84 neg (1)
Sample type:UW O6B61 neg (1)
Sample type:UW O6B7 neg (1)
Sample type:UW O6B84 neg (1)
Sample type:UW pooled neg (22)
Sample type:UW pooled neg condition (17)
Sample type:UW pooled pos condition (1)
Sample type:UW pooled with spike neg (3)
Filtering Parameters
Select threshold % for selection below:
100% (option 4 only)
95%
90%
85%
80%
75%
70%
65%
60%
55%
50%
45%
40%
35%
30%
20%
10%
0%
Option 1:
Filter by Sum
(Analytes whose sum for all samples falls below the threshold % will be excluded)
Option 2:
Filter by Mean
(Analytes whose mean for all samples falls below the threshold % will be excluded)
Option 3:
Filter by Median
(Analytes whose median for all samples falls below the threshold % will be excluded)
Option 4:
Filter by Sample threshold
At least one of the 2 selected groups
Both groups
must exceed the above threshold per analyte
In order for an analyte to be retained, the % of samples in one/both groups which are non-zero must exceed the threshold.
Option 5:
Remove all analytes containing null values
Sample Normalization Parameters
Normalize samples by:
None
Sample means
Sample sums
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