Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.3.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0603	0.878
27DAP/17DAP	1.1025	0.872
39DAP/27DAP	1.1561	0.961
41DAP/39DAP	1.14189	0.822
42DAP/41DAP	1.35167	0.751
43DAP/42DAP	1.10179	0.962
47DAP/43DAP	0.91214	0.696
52DAP/47DAP	1.2639	0.814
57DAP/52DAP	1.36195	0.694

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71233	0.032
17DAP/reference	0.65534	0.007
27DAP/reference	0.82856	0.012
39DAP/reference	0.70694	0.027
41DAP/reference	0.80015	0.201
42DAP/reference	0.68519	0.001
43DAP/reference	0.71255
47DAP/reference	0.76872	0.003
52DAP/reference	1.03311	0.768
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83959	0.228
27DAP/17DAP	0.95461	0.887
39DAP/27DAP	0.9501	0.737
41DAP/39DAP	0.85148	0.713
42DAP/41DAP	1.19312	0.861
43DAP/42DAP	1.08336	1
47DAP/43DAP	1.02905	0.95
52DAP/47DAP	1.0808	0.973
57DAP/52DAP	0.93638	0.584
57DAP/7DAP	0.66987	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06075	0.732
17DAP/reference	1.10287	0.754
27DAP/reference	1.13162	0.664
39DAP/reference	1.143	0.865
41DAP/reference	1.17449	0.232
42DAP/reference	1.108	1
43DAP/reference	1.14931	0.226
47DAP/reference	0.90368	0.383
52DAP/reference	0.88745	0.09
57DAP/reference	0.93311	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85342	0.17
17DAP/reference	0.70253	0.011
27DAP/reference	0.99479	0.663
39DAP/reference	1.0593	0.978
41DAP/reference	1.52674	0.248
42DAP/reference	1.14688	0.342
43DAP/reference	0.70681	0.033
47DAP/reference	0.76182	0.009
52DAP/reference	0.95768	0.351
57DAP/reference	0.62045	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86162	0.249
17DAP/reference	0.96028	0.571
27DAP/reference	0.92804	0.397
39DAP/reference	1.10571	0.613
41DAP/reference	1.04079	0.939
42DAP/reference	1.03718	0.848
43DAP/reference	1.07472	0.935
47DAP/reference	0.94897	0.371
52DAP/reference	0.82929	0.145
57DAP/reference	1.44128	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82909	0.981
26DAP/20DAP	1.6925	0.379
34DAP/26DAP	1.1388	0.819
51DAP/34DAP	1.37843	0.483
52DAP/51DAP	0.8828	1
53DAP/52DAP	1.96276	0.91
55DAP/53DAP	1.16406	0.813
57DAP/55DAP	1.19612	0.765
62DAP/57DAP	1.29651	0.217
68DAP/62DAP	3.00578	0.011
68DAP/14DAP	3.2131	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70926	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.32439
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.21851
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.90275

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.8828
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	0.95637
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.59452
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.36909	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.96981	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.38098	1
WT/WTpooled	N/A	N/A

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	1.02554	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12089	0.921
DC3000/delta hrp 6h	1.07775	1
DC3000/delta hrp 12h	1.09415	1
DC3000/delta hrp 24h	1.00419	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98071	1
Exp 36h	0.98695	1
Exp 60h	1.10133	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.94509	1
Var 12h I row2-row1	0.80144	0.338
Var 12h NI row2-row1	1.13172	0.34
Var 36h I row2-row1	1.44671	0.742
Var 36h NI row2-row1	0.97429	0.743
Var 60h I row2-row1	0.66288
Var 60h NI row2-row1	1.01342	1
Time course 0hI-0hNI	1.03071	0.799
Time course 12hI-12hNI	1.02379	0.85
Time course 36hI-36hNI	0.84309	0.171
Time course 60hI-60hNI	0.72004	0.081

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)	1.02325	0.748
transgenic ySAMdc/azygous control (breaker)	1.20617	0.178
transgenic ySAMdc/azygous control (red)	0.96298	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98403	0.568

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18658	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19754	0.14
Manapal/WT (break)	0.96428	1
Manapal/WT (red)	1.00069	1