Perform Volcano plot analysis on selected experimental conditions followed by MS search on significant features

Group1Experimental factorGroup2
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments: Group1, DG extract high dose (7)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group1, DG extract high dose (3)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 2, DG extract low dose (10)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 3, KK 01 high dose (10)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 4, KK 01 low dose (i.p.) (10)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 5, metformin (9)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 6, rosiglitazone (10)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 7, saline (9)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 8, saline (1)
Gene type:C57BLKsJ-db/db | Phenotypic grouping and treaments:Group 9, saline (i.p.) (3)
Gene type:C57BLKsJ (WT) | Phenotypic grouping and treaments:Group 8, saline (10)
Gene type:Pool serum from Sigma | Phenotypic grouping and treaments:- (11)

Filtering Parameters
Select threshold % for selection below:
Option 1: No filtering
Option 2: Filter by Sum (Analytes whose sum for all samples falls below the threshold % will be excluded)
Option 3: Filter by Mean (Analytes whose mean for all samples falls below the threshold % will be excluded)
Option 4: Filter by Median (Analytes whose median for all samples falls below the threshold % will be excluded)
Option 5: Filter by Sample threshold       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 6: Remove all analytes containing null values
Sample Normalization Parameters
Normalize samples by:
Volcano Plot Parameters
P-value cutoff: Fold-change cutoff:
MS Search Parameters
Search Refmet database
MS Ion polarity:POSITIVE MS search m/z tolerance:
Ion adducts(choose at least one)
Positive mode:
[M+H]+ [M+H-H2O]+ [M+Na]+ [M+NH4]+ [M+K]+ [M+2H]2+ [M+2Na]2+ [M+2Na-H]+
[M+H-EtnP]+ [M+H-SerP]+

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