Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.12.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23787	0.477
27DAP/17DAP	1.10597	1
39DAP/27DAP	1.24927	0.606
41DAP/39DAP	0.95468	0.819
42DAP/41DAP	1.37508	0.599
43DAP/42DAP	1.11956	0.894
47DAP/43DAP	1.00912	0.953
52DAP/47DAP	1.05166	0.92
57DAP/52DAP	1.17583	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02221	0.735
17DAP/reference	0.90896	0.18
27DAP/reference	1.02678	0.637
39DAP/reference	0.96021	0.575
41DAP/reference	0.88327	0.065
42DAP/reference	1.07193	0.137
43DAP/reference	1.00774	0.957
47DAP/reference	1.00316	0.72
52DAP/reference	0.94267	0.23
57DAP/reference	1.02119	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01333	1
27DAP/17DAP	0.91736	0.684
39DAP/27DAP	0.98598	0.925
41DAP/39DAP	1.03568	0.88
42DAP/41DAP	0.97378	0.776
43DAP/42DAP	1.05152	0.351
47DAP/43DAP	0.98808	0.947
52DAP/47DAP	0.95327	0.729
57DAP/52DAP	0.96083	0.612
57DAP/7DAP	1.06665	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25553	0.039
17DAP/reference	0.93582	0.144
27DAP/reference	0.81754	0.01
39DAP/reference	0.9085	0.043
41DAP/reference	0.90995	0.107
42DAP/reference	0.90006	0.023
43DAP/reference	0.98247	0.502
47DAP/reference	1.1572	0.345
52DAP/reference	0.9318	0.137
57DAP/reference	1.03024	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01692	0.952
17DAP/reference	0.99733	0.659
27DAP/reference	1.03223	1
39DAP/reference	1.08305	0.62
41DAP/reference	1.05806	0.642
42DAP/reference	1.06332	0.519
43DAP/reference	0.93855	0.468
47DAP/reference	1.21075	0.061
52DAP/reference	0.92631	0.131
57DAP/reference	0.9685	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02407	1
17DAP/reference	0.92375	0.221
27DAP/reference	0.79946	0.047
39DAP/reference	0.86642	0.058
41DAP/reference	0.86193	0.05
42DAP/reference	0.901	0.108
43DAP/reference	1.05573	0.482
47DAP/reference	1.11552	0.405
52DAP/reference	0.96369	0.637
57DAP/reference	0.96358	0.527

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02767	1
26DAP/20DAP	0.93042	1
34DAP/26DAP	1.05957	1
51DAP/34DAP	0.95082	0.64
52DAP/51DAP	0.9813	1
53DAP/52DAP	0.99464	0.978
55DAP/53DAP	0.99274	0.894
57DAP/55DAP	1.30214	0.287
62DAP/57DAP	0.89218	0.466
68DAP/62DAP	1.44464	0.31
68DAP/14DAP	3.23909	0.018

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91436	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.08455	0.113
Mature Green Tomato/Ripe Tomato	1.00253	0.835
Immature Eggplant/Mature Eggplant	1.39207	0.101
Ripe Pepper/Ripe Tomato	1.31999	1
Mature Eggplant/Ripe Tomato	0.67078	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91147
1-1-2/M82	0.89177	1
12-2/M82	0.86374	0.727
12-4/M82	1.01395	1
1-3/M82	1.15395	0.277
2-1-1/M82	2.02669	0.284
2-1/M82	2.34884
2-6/M82	1.21667
3-2/M82	1.08551
4-1-1/M82	1.09201	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.11932	1
5-3/M82	1.09018	1
6-2/M82	1.48143	0.253
6-3/M82	0.95666	1
7-1/M82	1.5598
7-2/M82	1.01436
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	1.24635	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97815	1
IL12-4/WTpooled	0.92237	0.71
IL1-4/WTpooled	1.05376
WT/WTpooled	0.87182	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	0.87799	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99647	1
DC3000/delta hrp 6h	0.88918	0.95
DC3000/delta hrp 12h	0.89568	1
DC3000/delta hrp 24h	1.07511	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.56732	0.023
DC3000 delta B/DC3000 delta AB	0.526	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87182	1
Exp 36h	2.15149	1
Exp 60h	1.16621	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96784	1
Var 0h	1.02516	0.98
Var 12h I row2-row1	0.83612	0.467
Var 12h NI row2-row1	0.98363	1
Var 36h I row2-row1	0.98437	1
Var 36h NI row2-row1	0.93911	0.706
Var 60h I row2-row1	1.0691	0.487
Var 60h NI row2-row1	1.00479	1
Time course 0hI-0hNI	0.98456	0.962
Time course 12hI-12hNI	0.96309	0.742
Time course 36hI-36hNI	0.94897	0.284
Time course 60hI-60hNI	0.32353	0.005

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)	1.01873	0.863
transgenic ySAMdc/azygous control (breaker)	0.75565	0.118
transgenic ySAMdc/azygous control (red)	0.98729	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18912	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82143	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.18457	0.307
Manapal/WT (break)	1.02701	1
Manapal/WT (red)	1.16801	0.413