Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.16.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.56966	0.414
27DAP/17DAP	0.97389	0.978
39DAP/27DAP	0.97161	0.719
41DAP/39DAP	0.93203	0.711
42DAP/41DAP	0.85666	0.774
43DAP/42DAP	0.97945	0.925
47DAP/43DAP	1.72235	0.377
52DAP/47DAP	1.67795	0.156
57DAP/52DAP	1.1863	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79538	0.038
17DAP/reference	1.10137	0.565
27DAP/reference	1.50618	0.037
39DAP/reference	1.5246	0.023
41DAP/reference	1.32627	0.05
42DAP/reference	0.98804	0.455
43DAP/reference	0.99871	0.84
47DAP/reference	1.14925	0.055
52DAP/reference	1.41531	0.011
57DAP/reference	1.20051	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85187	0.277
27DAP/17DAP	1.23128	0.423
39DAP/27DAP	0.99095	0.984
41DAP/39DAP	1.17783	0.79
42DAP/41DAP	0.96529	0.721
43DAP/42DAP	0.83856	0.03
47DAP/43DAP	0.94397	0.764
52DAP/47DAP	1.32595	0.237
57DAP/52DAP	1.62208	0.05
57DAP/7DAP	1.3463	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7795	0.062
17DAP/reference	0.7552	0.02
27DAP/reference	0.96225	0.375
39DAP/reference	0.69711	0.011
41DAP/reference	0.71867	0.012
42DAP/reference	0.96411	0.304
43DAP/reference	0.85257	0.059
47DAP/reference	0.92409	0.383
52DAP/reference	0.81203	0.019
57DAP/reference	0.72499	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03597	0.802
17DAP/reference	0.98614	0.642
27DAP/reference	0.88623	0.195
39DAP/reference	0.99931	0.722
41DAP/reference	0.87906	0.091
42DAP/reference	1.08809	0.543
43DAP/reference	1.37062	0.202
47DAP/reference	1.05865	0.544
52DAP/reference	1.18184	0.01
57DAP/reference	1.01929	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80966	0.082
17DAP/reference	0.88293	0.205
27DAP/reference	0.9434	0.337
39DAP/reference	0.92111	0.199
41DAP/reference	0.96121	0.459
42DAP/reference	0.92117	0.108
43DAP/reference	0.69647	0.098
47DAP/reference	1.12505	0.089
52DAP/reference	1.10254	0.609
57DAP/reference	1.33094	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98705	1
26DAP/20DAP	0.85031	0.512
34DAP/26DAP	1.36171	0.819
51DAP/34DAP	1.15081	1
52DAP/51DAP	1.21732	0.626
53DAP/52DAP	1.35844	0.552
55DAP/53DAP	0.86521	0.35
57DAP/55DAP	1.09879	0.898
62DAP/57DAP	0.82636	0.681
68DAP/62DAP	1.32243	0.539
68DAP/14DAP	0.71755

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.66003	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.46311	0.042
Immature Eggplant/Mature Eggplant	0.5024	0.069
Ripe Pepper/Ripe Tomato	0.10992	0.224
Mature Eggplant/Ripe Tomato	0.28172	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89656	0.883
1-1-2/M82	1.09045	1
12-2/M82	0.84038	0.721
12-4/M82	1.01541	1
1-3/M82	1.19066	0.248
2-1-1/M82	0.79644	0.565
2-1/M82	0.67141	0.322
2-6/M82	1.20595	0.352
3-2/M82	1.01613
4-1-1/M82	1.19233	0.998
4-1/M82	0.99229	1
4-3-2/M82	0.95276	1
4-3/M82	1.1163	1
5-3/M82	0.95337	1
6-2/M82	0.74828	0.481
6-3/M82	1.19549	1
7-1/M82	1.11067	0.598
7-2/M82	1.16814	0.385
9-3-2/M82	1.08223

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	N/A	N/A
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	0.89113	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11069	0.914
DC3000/delta hrp 6h	1.14743	1
DC3000/delta hrp 12h	0.93257	1
DC3000/delta hrp 24h	0.74493	0.038

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	1.01708	1
Exp 36h	0.85264	0.879
Exp 60h	0.80458	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01306	1
Var 0h	0.98279	1
Var 12h I row2-row1	0.92122	0.338
Var 12h NI row2-row1	0.9382	0.494
Var 36h I row2-row1	0.64845	1
Var 36h NI row2-row1	1.05906	0.276
Var 60h I row2-row1	1.07091	1
Var 60h NI row2-row1	0.96776	1
Time course 0hI-0hNI	1.03751	0.662
Time course 12hI-12hNI	0.94929	0.295
Time course 36hI-36hNI	0.85084	0.024
Time course 60hI-60hNI	0.4489	0.006

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)	0.94641	0.306
transgenic ySAMdc/azygous control (breaker)	0.97755	0.49
transgenic ySAMdc/azygous control (red)	0.76298	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13353	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.36056	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57496	1
Manapal/WT (break)	1.1851	1
Manapal/WT (red)	1.86738	0.126