Extended Data Fig. 2: DESeq2 Plots. | Nature Cancer

Extended Data Fig. 2: DESeq2 Plots.

From: Multiomic analysis of familial adenomatous polyposis reveals molecular pathways associated with early tumorigenesis

Extended Data Fig. 2

Transcriptomic DESeq2 MA plots from various (Patient, Batch) pairs along with the number of samples from which mRNA was derived for each of the three stages and contrasts. Green indicates contrasts that ultimately contribute to differential expression. (a) MA plot for patient A001 in Batch 1 with 10 samples (3 Mucosa, 5 Benign Polyp, 2 Dysplastic Polyp). (b) MA plot for patient A002 in Batch 1 with 11 samples (3 Mucosa and 8 Dysplastic Polyp). (c) MA plot for patient A002 in Batch 3 with 14 samples (7 Mucosa and 7 Dysplastic). (d) MA plot for patient A015 in Batch 3 (4 Mucosa and 2 Dysplastic Polyps). (e) MA plot for patient F in Batch 3 (4 Benign Polyp and 16 Dysplastic Polyp). (f) Shows the total breakdown in the number of samples from which mRNA was extracted across the different (Patient, Batch) pairs. Though there were 61 samples, one sample (A002-C-213) was present in two batches.

Back to article page