Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.18.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30263	0.523
27DAP/17DAP	0.94366	0.952
39DAP/27DAP	0.79598	0.425
41DAP/39DAP	1.31567	0.408
42DAP/41DAP	0.92824	0.774
43DAP/42DAP	1.22721	0.933
47DAP/43DAP	1.93894	0.563
52DAP/47DAP	1.01818	0.916
57DAP/52DAP	1.20924	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81352	0.027
17DAP/reference	0.79758	0.028
27DAP/reference	0.91999	0.395
39DAP/reference	0.89296	0.2
41DAP/reference	0.74341	0.009
42DAP/reference	0.84897	0.01
43DAP/reference	0.9823	0.728
47DAP/reference	0.83994	0.009
52DAP/reference	1.05109	0.84
57DAP/reference	0.96829	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1271	0.961
27DAP/17DAP	0.88981	0.782
39DAP/27DAP	1.01442	0.874
41DAP/39DAP	1.13289	1
42DAP/41DAP	0.88693	0.451
43DAP/42DAP	0.98172	0.831
47DAP/43DAP	0.97703	0.933
52DAP/47DAP	1.05415	0.819
57DAP/52DAP	1.09242	0.777
57DAP/7DAP	0.9113	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18687	0.241
17DAP/reference	1.41174	0.032
27DAP/reference	1.21959	0.035
39DAP/reference	1.20695	0.186
41DAP/reference	1.15654	0.56
42DAP/reference	1.31276	0.132
43DAP/reference	1.36317	0.013
47DAP/reference	1.0732	0.822
52DAP/reference	1.15867	0.563
57DAP/reference	1.41836	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.868	0.238
17DAP/reference	0.5959	0.003
27DAP/reference	0.86868	0.129
39DAP/reference	0.87646	0.136
41DAP/reference	0.90596	0.091
42DAP/reference	0.81789	0.055
43DAP/reference	0.79794	0.066
47DAP/reference	0.86028	0.164
52DAP/reference	0.87261	0.078
57DAP/reference	0.7715	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07923	0.709
17DAP/reference	1.00847	0.792
27DAP/reference	1.30028	0.057
39DAP/reference	1.32337	0.019
41DAP/reference	1.06936	0.889
42DAP/reference	1.23549	0.3
43DAP/reference	1.07997	0.634
47DAP/reference	0.88971	0.072
52DAP/reference	2.13294	0.324
57DAP/reference	1.17408	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.36191	0.545
26DAP/20DAP	1.28495	0.471
34DAP/26DAP	0.96238	0.917
51DAP/34DAP	1.26834	0.271
52DAP/51DAP	1.03968	0.925
53DAP/52DAP	1.09091	0.961
55DAP/53DAP	1.28656	0.634
57DAP/55DAP	1.00509	0.938
62DAP/57DAP	1.31007	0.8
68DAP/62DAP	1.65987	0.113
68DAP/14DAP	1.49193	0.044

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80908	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.70797	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.95134	1
Mature Eggplant/Ripe Tomato	1.2627

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	0.7759
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	0.79943
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.7835
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.35846
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.21769	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	0.84689	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22766	0.823
DC3000/delta hrp 6h	1.35102	1
DC3000/delta hrp 12h	0.90889	1
DC3000/delta hrp 24h	0.8755	0.338

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	1.07149	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.7879	1
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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	1.09243
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.33079
Time course 0hI-0hNI	1.01665	0.867
Time course 12hI-12hNI	0.99536	1
Time course 36hI-36hNI	0.86306	0.023
Time course 60hI-60hNI	1.14364

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)	1.07492	0.612
transgenic ySAMdc/azygous control (breaker)	1.81615	0.172
transgenic ySAMdc/azygous control (red)	1.11059	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13753	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30788	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04965	1
Manapal/WT (break)	1.14263	1
Manapal/WT (red)	1.23463	0.413