Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86957	0.456
27DAP/17DAP	1.00161	0.941
39DAP/27DAP	1.16085	0.876
41DAP/39DAP	0.99693	0.915
42DAP/41DAP	0.94866	1
43DAP/42DAP	1.20571	0.722
47DAP/43DAP	0.74943	0.251
52DAP/47DAP	1.22746	0.691
57DAP/52DAP	0.9614	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74085	0.03
17DAP/reference	0.85704	0.046
27DAP/reference	0.95474	0.552
39DAP/reference	0.86629	0.121
41DAP/reference	0.76343	0.018
42DAP/reference	0.95609	0.218
43DAP/reference	1.03689	1
47DAP/reference	1.63562	0.002
52DAP/reference	1.76936	0.012
57DAP/reference	1.20628	0.166

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93332	0.194
27DAP/17DAP	1.06997	0.735
39DAP/27DAP	0.94995	0.556
41DAP/39DAP	0.99711	1
42DAP/41DAP	1.0147	0.947
43DAP/42DAP	1.01561	0.788
47DAP/43DAP	1.0263	0.88
52DAP/47DAP	0.867	0.255
57DAP/52DAP	0.9012	0.454
57DAP/7DAP	0.97862	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.69256	0.066
17DAP/reference	1.21602	0.016
27DAP/reference	1.26931	0.06
39DAP/reference	0.94966	0.307
41DAP/reference	1.41475	0.057
42DAP/reference	1.59321	0.018
43DAP/reference	1.37792	0.014
47DAP/reference	1.17341	0.285
52DAP/reference	1.09102	0.526
57DAP/reference	1.39251	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70363	0.008
17DAP/reference	0.77163	0.021
27DAP/reference	0.8841	0.097
39DAP/reference	0.93741	0.227
41DAP/reference	0.867	0.06
42DAP/reference	0.95854	0.433
43DAP/reference	0.7813	0.07
47DAP/reference	0.82422	0.055
52DAP/reference	0.78129	0.008
57DAP/reference	0.80046	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95638	0.391
17DAP/reference	1.05917	1
27DAP/reference	1.31638	0.07
39DAP/reference	1.01955	1
41DAP/reference	0.92218	0.237
42DAP/reference	1.33254	0.204
43DAP/reference	1.14201	0.202
47DAP/reference	1.44678	0.01
52DAP/reference	1.4493	0.172
57DAP/reference	1.62861	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79771	0.807
26DAP/20DAP	1.00861	1
34DAP/26DAP	0.98124	0.98
51DAP/34DAP	0.82777	0.225
52DAP/51DAP	1.00827	1
53DAP/52DAP	1.00429	1
55DAP/53DAP	1.18807	0.287
57DAP/55DAP	1.10631	1
62DAP/57DAP	1.39385	0.133
68DAP/62DAP	1.05092	0.939
68DAP/14DAP	1.51237	0.059

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09627	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6293	0.177
Mature Green Tomato/Ripe Tomato	1.66677	0.018
Immature Eggplant/Mature Eggplant	1.45911	0.157
Ripe Pepper/Ripe Tomato	0.80131	1
Mature Eggplant/Ripe Tomato	1.6815	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.82616
12-2/M82	N/A	N/A
12-4/M82	0.87057
1-3/M82	N/A	N/A
2-1-1/M82	0.94744
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	1.54361
4-3/M82	N/A	N/A
5-3/M82	1.17381	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	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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.80304
WT/WTpooled	0.6182

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	1.21243	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0208	0.921
DC3000/delta hrp 6h	1.10352	1
DC3000/delta hrp 12h	0.84154	1
DC3000/delta hrp 24h	2.71003	0.035

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.31884	0.048
DC3000 delta B/DC3000 delta AB	1.26393	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10165	1
Exp 36h	0.93076	0.749
Exp 60h	0.84385	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00596	1
Var 0h	0.91776	1
Var 12h I row2-row1	1.03696	0.654
Var 12h NI row2-row1	0.98308	0.906
Var 36h I row2-row1	1.25777	0.742
Var 36h NI row2-row1	1.02718	1
Var 60h I row2-row1	0.8859	0.285
Var 60h NI row2-row1	0.84002	0.516
Time course 0hI-0hNI	1.09563	0.719
Time course 12hI-12hNI	0.98898	0.968
Time course 36hI-36hNI	1.22276	0.039
Time course 60hI-60hNI	1.66871	0.008

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)	1.20388	0.277
transgenic ySAMdc/azygous control (breaker)	1.26829	1
transgenic ySAMdc/azygous control (red)	0.90472	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00707	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73347	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31625	0.14
Manapal/WT (break)	1.30495	0.381
Manapal/WT (red)	0.92871	0.728