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A substantial fraction (31%) of the 55 gene probes showing inconsistent patterns were scored as differentially expressed in only one of the nodule samples examined by 16KPlus microarrays.
All patterns were scored from photographs available at www.lepdata.org.org
All other staining patterns were scored as negative.
The FLCN immunostaining patterns were scored as follows.
The PCR banding patterns were scored 1 5.
The fluorescent AFLP patterns were scored using GeneMapper version 3.7 (Applied Biosystems).
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The localization for these patterns is scored as described above.
All candidate patterns are scored by the physico-chemical scoring functions which is detailed in Additional file 3.
Primary and secondary growth patterns are scored as: (1) acinar (organoid), (2) lobular, (3) trabecular and (4) tubular.
The number of produced unique patterns as well as the error ratio (perseverations divided by the sum of unique patterns) was scored.
The label "negative" for expression means that no specific expression patterns was scored for this insertion at the embryonic stages assayed, whereas an insertion is labelled as "positive" if specific expression is detected at least at one stage of development.
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