Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91224	0.558
27DAP/17DAP	1.22586	0.769
39DAP/27DAP	0.90667	0.512
41DAP/39DAP	0.9939	0.825
42DAP/41DAP	0.95554	1
43DAP/42DAP	1.05639	1
47DAP/43DAP	1.17964	0.609
52DAP/47DAP	0.7203	0.31
57DAP/52DAP	1.30831	0.886

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91283	0.08
17DAP/reference	1.07784	0.138
27DAP/reference	1.06421	0.239
39DAP/reference	1.01447	0.679
41DAP/reference	1.07238	0.338
42DAP/reference	0.8883	0.038
43DAP/reference	1.02673	0.787
47DAP/reference	0.90566	0.106
52DAP/reference	0.90485	0.093
57DAP/reference	0.90096	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98008	0.716
27DAP/17DAP	0.9749	0.854
39DAP/27DAP	0.99047	0.984
41DAP/39DAP	0.9419	0.645
42DAP/41DAP	0.98226	0.801
43DAP/42DAP	1.01776	0.746
47DAP/43DAP	1.02235	0.822
52DAP/47DAP	0.99088	0.941
57DAP/52DAP	0.9035	0.289
57DAP/7DAP	0.99186	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87999	0.146
17DAP/reference	0.87557	0.144
27DAP/reference	0.7829	0.01
39DAP/reference	0.89468	0.095
41DAP/reference	0.8602	0.079
42DAP/reference	0.77074	0.014
43DAP/reference	0.74523	0.02
47DAP/reference	0.82244	0.168
52DAP/reference	0.69624	0.013
57DAP/reference	0.77955	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01483	1
17DAP/reference	1.06799	0.11
27DAP/reference	0.89906	0.181
39DAP/reference	1.01177	1
41DAP/reference	0.92659	0.089
42DAP/reference	0.79487	0.016
43DAP/reference	1.18345	0.116
47DAP/reference	0.91524	0.137
52DAP/reference	1.08971	0.322
57DAP/reference	1.21636	0.062

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78938	0.03
17DAP/reference	0.95572	0.55
27DAP/reference	0.80133	0.036
39DAP/reference	0.88095	0.199
41DAP/reference	0.91787	0.185
42DAP/reference	0.79245	0.028
43DAP/reference	0.79003	0.018
47DAP/reference	0.95956	0.421
52DAP/reference	0.77196	0.15
57DAP/reference	0.74175	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0017	1
26DAP/20DAP	0.9796	1
34DAP/26DAP	0.97913	0.961
51DAP/34DAP	1.02007	0.898
52DAP/51DAP	0.96756	1
53DAP/52DAP	1.0294	0.768
55DAP/53DAP	1.01272	0.994
57DAP/55DAP	1.17409	0.525
62DAP/57DAP	0.88626	0.681
68DAP/62DAP	0.845	0.641
68DAP/14DAP	1.12326	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0817	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4145
Mature Green Tomato/Ripe Tomato	0.97955	0.715
Immature Eggplant/Mature Eggplant	1.63572	0.222
Ripe Pepper/Ripe Tomato	0.86232	0.293
Mature Eggplant/Ripe Tomato	0.8316	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.2575	0.742
1-1-2/M82	0.86778	0.804
12-2/M82	N/A	N/A
12-4/M82	0.76089
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	0.74365
4-1-1/M82	N/A	N/A
4-1/M82	0.95253
4-3-2/M82	0.96806	1
4-3/M82	N/A	N/A
5-3/M82	1.07945	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.09239
9-3-2/M82	0.77532	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87987	0.321
IL2-6/WTpooled	1.1104	0.659
IL7-5/WTpooled	1.06765	1
IL7-3/WTpooled	0.89927	0.418
IL12-4/WTpooled	1.45668	0.839
IL1-4/WTpooled	1.07775	1
WT/WTpooled	0.95981	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	0.99374	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12759	0.724
DC3000/delta hrp 6h	0.83078	0.95
DC3000/delta hrp 12h	1.18304	1
DC3000/delta hrp 24h	1.20551	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15716	0.063
DC3000 delta B/DC3000 delta AB	1.27456	0.144

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05461	1
Exp 36h	0.7972	0.393
Exp 60h	0.90234	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04244	1
Var 0h	0.798	0.98
Var 12h I row2-row1	1.05367	0.58
Var 12h NI row2-row1	0.98238	0.906
Var 36h I row2-row1	1.16357	1
Var 36h NI row2-row1	1.11345	1
Var 60h I row2-row1	1.13426	0.562
Var 60h NI row2-row1	1.10387	0.904
Time course 0hI-0hNI	1.05072	0.852
Time course 12hI-12hNI	0.97462	0.79
Time course 36hI-36hNI	0.96749	0.295
Time course 60hI-60hNI	0.98899	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)	1.05405	0.326
transgenic ySAMdc/azygous control (breaker)	0.69756	0.142
transgenic ySAMdc/azygous control (red)	1.01762	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99017	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90522	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03529	0.307
Manapal/WT (break)	0.96864	1
Manapal/WT (red)	0.74187	0.181