Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02755	0.912
27DAP/17DAP	1.02885	1
39DAP/27DAP	0.93768	0.663
41DAP/39DAP	1.18916	0.715
42DAP/41DAP	1.14579	0.886
43DAP/42DAP	0.85862	0.598
47DAP/43DAP	0.94511	0.716
52DAP/47DAP	0.97817	0.851
57DAP/52DAP	0.94406	0.94

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19143	0.052
17DAP/reference	1.1243	0.21
27DAP/reference	0.96931	0.567
39DAP/reference	1.0374	0.403
41DAP/reference	1.06446	0.365
42DAP/reference	1.1758	0.174
43DAP/reference	1.08119	0.34
47DAP/reference	1.08925	0.509
52DAP/reference	0.89934	0.237
57DAP/reference	0.81124	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17051	0.059
27DAP/17DAP	0.94397	0.782
39DAP/27DAP	1.12599	0.505
41DAP/39DAP	0.99279	1
42DAP/41DAP	0.93683	0.565
43DAP/42DAP	0.97042	0.751
47DAP/43DAP	1.22697	0.848
52DAP/47DAP	0.91337	0.694
57DAP/52DAP	0.92089	0.359
57DAP/7DAP	0.8827	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93947	0.138
17DAP/reference	0.97104	0.447
27DAP/reference	0.99374	0.656
39DAP/reference	1.06098	0.371
41DAP/reference	1.03468	0.723
42DAP/reference	0.94793	0.32
43DAP/reference	1.04322	1
47DAP/reference	1.06607	0.582
52DAP/reference	0.89997	0.09
57DAP/reference	0.94503	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35768	0.038
17DAP/reference	1.25984	0.009
27DAP/reference	1.25054	0.044
39DAP/reference	1.04174	1
41DAP/reference	1.00819	1
42DAP/reference	1.14174	0.24
43DAP/reference	1.21149	0.105
47DAP/reference	1.09458	0.527
52DAP/reference	1.02997	0.988
57DAP/reference	1.07964	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98813	0.653
17DAP/reference	1.0228	0.966
27DAP/reference	0.90999	0.218
39DAP/reference	0.94124	0.147
41DAP/reference	0.98397	0.618
42DAP/reference	0.96242	0.552
43DAP/reference	0.91789	0.305
47DAP/reference	1.17229	0.019
52DAP/reference	1.01763	1
57DAP/reference	0.9514	0.43

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.35256	0.916
26DAP/20DAP	0.95151	1
34DAP/26DAP	1.61548	0.819
51DAP/34DAP	1.15034	0.692
52DAP/51DAP	0.98468	1
53DAP/52DAP	1.05249	0.723
55DAP/53DAP	0.96382	0.761
57DAP/55DAP	1.0792	0.779
62DAP/57DAP	0.98211	0.994
68DAP/62DAP	0.91303	0.769
68DAP/14DAP	0.8942	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23091	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.7683	0.23
Mature Green Tomato/Ripe Tomato	1.39316	0.237
Immature Eggplant/Mature Eggplant	1.21159	0.11
Ripe Pepper/Ripe Tomato	1.05714	1
Mature Eggplant/Ripe Tomato	0.48569	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12008	0.877
1-1-2/M82	0.9477	1
12-2/M82	1.20812	1
12-4/M82	1.03062	1
1-3/M82	1.17394	1
2-1-1/M82	0.9264	0.465
2-1/M82	0.89509	0.519
2-6/M82	0.9361	1
3-2/M82	1.02922	0.84
4-1-1/M82	0.87899	0.962
4-1/M82	1.41738	0.853
4-3-2/M82	0.89013	0.487
4-3/M82	0.91281	0.551
5-3/M82	0.96317	1
6-2/M82	0.77501	1
6-3/M82	1.0249
7-1/M82	N/A	N/A
7-2/M82	0.9477	0.881
9-3-2/M82	1.06841	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91597	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.17496
IL7-3/WTpooled	1.12874	1
IL12-4/WTpooled	0.75174	0.71
IL1-4/WTpooled	1.24908	1
WT/WTpooled	1.325	0.785

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	0.90832	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0756	0.75
DC3000/delta hrp 6h	1.05099	1
DC3000/delta hrp 12h	1.01283	1
DC3000/delta hrp 24h	0.98379	0.945

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.73952
DC3000 delta B/DC3000 delta AB	0.91181	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04147	1
Exp 36h	0.94872	1
Exp 60h	1.08499	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97478	1
Var 0h	0.90783	1
Var 12h I row2-row1	1.02739	0.613
Var 12h NI row2-row1	0.98979
Var 36h I row2-row1	1.14175	0.742
Var 36h NI row2-row1	8.87779
Var 60h I row2-row1	1.02476	1
Var 60h NI row2-row1	0.73068
Time course 0hI-0hNI	1.13931	0.799
Time course 12hI-12hNI	0.99957	1
Time course 36hI-36hNI	1.21426	0.006
Time course 60hI-60hNI	1.52753	0.01

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)	0.9668	0.614
transgenic ySAMdc/azygous control (breaker)	0.79986	0.134
transgenic ySAMdc/azygous control (red)	0.97923	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05856	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03093	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0934	0.307
Manapal/WT (break)	1.02593	1
Manapal/WT (red)	1.16159	0.222