tkv UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
(Sample) genotype/Cy2-GAL4/UAS-lambda-Top
Vm26Ac DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Cyp28d1 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
alpha-Est10 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Muc4B DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
(Factor value) GENOTYPE/Cy2-GAL4/UAS-lambda-Top
Cyp6a17 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cyp28d1 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
srp DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG12560 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
GXIVsPLA2 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG6503 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
(Sample) organism/Drosophila melanogaster
CG31998 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Mhc UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Hsp23 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Cyp6a13 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Muc4B DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG18213 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
alpha-Est10 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG11381 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG5973 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Mitf UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG13299 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG31714 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cp15 DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Cp38 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG13299 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Lin29 DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG15068 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Hsp23 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
isoQC UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG7742 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
GstD1 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG17270 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
(Factor value) GENOTYPE/CY2-GAL4/UAS-dnEGFR
GstE1 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Hsp23 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG4398 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG4398 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG11880 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
18w UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG34166 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG17352 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cyp4p2 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Obp19c DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
GLaz DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
yellow-g2 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CRMP UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Cp38 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Cyp28d1 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG12560 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
sbb DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
srp DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG4398 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG32365 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Hsp68 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Ir76a DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
GstD1 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG7742 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG4398 DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Analysis of 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
GXIVsPLA2 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cyp12a4 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG6426 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG12560 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Cyp9b2 DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG10512 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
(Factor value) GENOTYPE/wild type genotype
Cyp12d1-d UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
GstE7 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG14073 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Cp36 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
yellow-g DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Analysis of 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cp7Fc DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Cyp6a17 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG31714 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Cp38 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Dpt UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
yellow-g DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Two-dimensional patterning of the follicular epithelium in Drosophila oogenesis is required for the formation of three-dimensional eggshell structures. Our analysis of a large number of published gene expression patterns in the follicle cells suggests that they follow a simple combinatorial code based on six spatial building blocks and the operations of union, difference, intersection, and addition. The building blocks are related to the distribution of inductive signals, provided by the highly conserved epidermal growth factor receptor and Decapentaplegic (DPP) pathways. We demonstrate the validity of the code by testing it against a set of patterns obtained in a large-scale transcriptional profiling experiment. Using the proposed code, we distinguish 36 distinct patterns for 81 genes expressed in the follicular epithelium and characterize their joint dynamics over four stages of oogenesis. The proposed combinatorial framework allows systematic analysis of the diversity and dynamics of two-dimensional transcriptional patterns and guides future studies of gene regulation. Keywords: EGFR, BMP, gain/loss-of-function RNA was isolated from hand dissected, stage 9-10 egg chambers. Five genetic backgrounds were profiled including: wild type, EGFR gain of function, EGFR loss of function, BMP gain of function, and BMP loss of function. Three biological replicates were hybridized for each pathway perturbation. The samples were split across two rounds of hybridization. Each round of hybridizations included three biological replicates for wild type: The first round included EGFR gof, EGFR lof, BMP gof, and wild type controls A1-A3 (GSM313514-16). For these 12 arrays the extraction, labeling, and hybridization steps were done in parallel. The second round included the BMP lof and wild type controls B1-B3 (GSM313517-19). For these 6 arrays, the extraction, labeling, and hybridization steps were done in parallel.
mthl8 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
CG4009 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG6293 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Hsp23 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG16836 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
(Factor value) GENOTYPE/CY2-GAL4/UAS-Dad
Mgstl DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Vm32E DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Muc4B DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG4009 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
mthl8 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG31886 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
GstD3 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG5888 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG33123 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Swim DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
(Factor value) GENOTYPE/CY2-GAL4/UAS-tkv*
yellow-g2 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Egfr UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Ras85D UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG31714 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Rcd2 UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
GstD1 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
pst UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Rala DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
18w UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Cp36 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG13114 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
yellow-g2 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG13032 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG33099 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
sda UP in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
IM3 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
bam UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Cyp9b2 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Analysis of 'CY2-GAL4/UAS-tkv*' vs 'wild type'
GstD3 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG14073 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
l(2)03659 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cyp9b2 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
Cyp9b2 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG12560 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG17544 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG31714 DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Rala DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Cp7Fc DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG15068 UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Dad UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG5245 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG17270 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
Analysis of 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Vm32E DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
CG11825 DOWN in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
Muc12Ea UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG4009 DOWN in 'CY2-GAL4/UAS-tkv*' vs 'wild type'
pst UP in 'CY2-GAL4/UAS-dnEGFR' vs 'wild type'
CG14073 DOWN in 'Cy2-GAL4/UAS-lambda-Top' vs 'wild type'
Drep-1 DOWN in 'CY2-GAL4/UAS-Dad' vs 'wild type'
GstD1 UP in 'CY2-GAL4/UAS-Dad' vs 'wild type'
CG11263 UP in 'CY2-GAL4/UAS-tkv*' vs 'wild type'