Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99853	0.743
27DAP/17DAP	1.06046	1
39DAP/27DAP	1.44391	0.235
41DAP/39DAP	0.81806	0.357
42DAP/41DAP	0.99582	1
43DAP/42DAP	0.8358	0.712
47DAP/43DAP	1.05913	0.95
52DAP/47DAP	0.94691	0.823
57DAP/52DAP	0.8471	0.783

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.077	0.844
17DAP/reference	0.98238	0.701
27DAP/reference	1.19267	0.056
39DAP/reference	1.05385	0.497
41DAP/reference	1.41405	0.018
42DAP/reference	1.2251	0.015
43DAP/reference	1.16402	0.03
47DAP/reference	1.27389	0.011
52DAP/reference	1.51751	0.029
57DAP/reference	1.38219	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20616	0.138
27DAP/17DAP	0.84223	0.295
39DAP/27DAP	0.78408	0.181
41DAP/39DAP	1.23342	0.887
42DAP/41DAP	1.44312	0.015
43DAP/42DAP	0.77687	0.056
47DAP/43DAP	0.82066	0.239
52DAP/47DAP	2.64449	0.044
57DAP/52DAP	2.80576	0.037
57DAP/7DAP	2.5697	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74199	0.08
17DAP/reference	0.83119	0.016
27DAP/reference	1.05536	0.804
39DAP/reference	0.79138	0.027
41DAP/reference	0.90888	0.122
42DAP/reference	1.12511	0.308
43DAP/reference	0.81906	0.018
47DAP/reference	0.86888	0.293
52DAP/reference	0.92526	0.254
57DAP/reference	0.69978	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.244	0.049
17DAP/reference	1.16771	0.294
27DAP/reference	1.33946	0.208
39DAP/reference	1.11225	0.529
41DAP/reference	1.20988	0.177
42DAP/reference	1.45777	0.012
43DAP/reference	1.11571	0.605
47DAP/reference	1.2349	0.04
52DAP/reference	1.24276	0.181
57DAP/reference	1.26158	0.025

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90285	0.23
17DAP/reference	0.9775	0.647
27DAP/reference	1.09258	0.373
39DAP/reference	0.87129	0.092
41DAP/reference	0.9831	0.618
42DAP/reference	1.09893	0.576
43DAP/reference	1.14448	0.827
47DAP/reference	1.33012	0.251
52DAP/reference	0.68594	0.228
57DAP/reference	1.33452	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7638	0.981
26DAP/20DAP	2.348	0.875
34DAP/26DAP	4.64458	1
51DAP/34DAP	2.42982	0.909
52DAP/51DAP	6.50734	0.033
53DAP/52DAP	0.64154	0.049
55DAP/53DAP	1.67368	0.047
57DAP/55DAP	0.38248	0.02
62DAP/57DAP	1.63847	0.723
68DAP/62DAP	4.13778	0.589
68DAP/14DAP	2.35136

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.11256	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.9817	0.715
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.51388

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.74192
1-1-2/M82	0.94021	1
12-2/M82	N/A	N/A
12-4/M82	1.04045	1
1-3/M82	0.62648
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.98619	1
3-2/M82	N/A	N/A
4-1-1/M82	0.97144
4-1/M82	1.32517
4-3-2/M82	1.0427	1
4-3/M82	0.99031
5-3/M82	1.04225	1
6-2/M82	0.80029
6-3/M82	0.91224
7-1/M82	N/A	N/A
7-2/M82	0.78093	0.796
9-3-2/M82	1.07508

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.60698
IL2-6/WTpooled	1.06305	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02116	1
IL12-4/WTpooled	0.97967	1
IL1-4/WTpooled	0.80036	0.338
WT/WTpooled	1.11628	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.34139	0.699

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88819	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05813	1
DC3000/delta hrp 24h	1.23016	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.41565	0.042
DC3000 delta B/DC3000 delta AB	1.33001	0.223

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.9891	1
Var 0h	0.42221	0.291
Var 12h I row2-row1	0.85017	0.565
Var 12h NI row2-row1	1.18925	0.34
Var 36h I row2-row1	1.19664	1
Var 36h NI row2-row1	1.46808	0.246
Var 60h I row2-row1	0.75932	0.285
Var 60h NI row2-row1	0.94194	1
Time course 0hI-0hNI	0.84892	0.274
Time course 12hI-12hNI	1.11354	0.867
Time course 36hI-36hNI	1.34913	0.316
Time course 60hI-60hNI	1.14153	1

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.39893	1
transgenic ySAMdc/azygous control (red)	0.93321	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87147	0.044

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0376	1

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.12607	0.222