Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07223	0.863
27DAP/17DAP	1.07907	0.877
39DAP/27DAP	1.18342	0.845
41DAP/39DAP	0.95328	0.828
42DAP/41DAP	1.06537	0.999
43DAP/42DAP	1.05432	0.937
47DAP/43DAP	1.32928	0.647
52DAP/47DAP	1.03615	0.842
57DAP/52DAP	1.37229	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74512	0.024
17DAP/reference	0.80608	0.033
27DAP/reference	0.84612	0.061
39DAP/reference	0.87178	0.068
41DAP/reference	0.74874	0.018
42DAP/reference	0.84459	0.001
43DAP/reference	0.87733	0.043
47DAP/reference	0.91098	0.06
52DAP/reference	1.07049	0.695
57DAP/reference	1.19162	0.052

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.65	0.473
27DAP/17DAP	1.01475	0.887
39DAP/27DAP	1.01815	1
41DAP/39DAP	1.29285	0.735
42DAP/41DAP	0.86037	0.309
43DAP/42DAP	1.20676	0.297
47DAP/43DAP	0.97992	0.919
52DAP/47DAP	0.88713	0.671
57DAP/52DAP	2.01671	0.374
57DAP/7DAP	1.1808	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91778	0.402
17DAP/reference	1.34867	0.297
27DAP/reference	1.07784	0.804
39DAP/reference	0.83413	0.043
41DAP/reference	0.78155	0.094
42DAP/reference	0.78403	0.038
43DAP/reference	1.1148	0.178
47DAP/reference	0.80044	0.222
52DAP/reference	1.10677	0.491
57DAP/reference	0.90996	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79177	0.035
17DAP/reference	0.84715	0.045
27DAP/reference	0.84677	0.06
39DAP/reference	0.91467	0.235
41DAP/reference	0.9863	0.531
42DAP/reference	0.8555	0.108
43DAP/reference	0.85704	0.095
47DAP/reference	0.85217	0.019
52DAP/reference	1.02947	1
57DAP/reference	0.79156	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97068	0.489
17DAP/reference	0.98632	0.727
27DAP/reference	1.05588	0.805
39DAP/reference	1.21569	0.169
41DAP/reference	1.05348	0.754
42DAP/reference	1.07449	0.907
43DAP/reference	0.83872	0.022
47DAP/reference	0.7287	0.008
52DAP/reference	0.87217	0.334
57DAP/reference	1.00987	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10932	0.966
26DAP/20DAP	1.35887	0.541
34DAP/26DAP	1.59642	0.819
51DAP/34DAP	1.08147	1
52DAP/51DAP	2.19655
53DAP/52DAP	0.99929	0.902
55DAP/53DAP	1.06302	1
57DAP/55DAP	0.81067	0.468
62DAP/57DAP	1.06825	0.935
68DAP/62DAP	1.41641	0.298
68DAP/14DAP	1.3048	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.36318	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2266
Mature Green Tomato/Ripe Tomato	2.45858
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.62296
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.19633
1-3/M82	N/A	N/A
2-1-1/M82	1.4631
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	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	1.04712	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98347	1
DC3000/delta hrp 6h	0.82116
DC3000/delta hrp 12h	0.77341	1
DC3000/delta hrp 24h	1.0655	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.0548
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	N/A	N/A
Exp 36h	1.60469	0.693
Exp 60h	1.2384	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98277	1
Var 0h	0.99061	1
Var 12h I row2-row1	1.04108	0.795
Var 12h NI row2-row1	0.92577	0.394
Var 36h I row2-row1	1.09342	1
Var 36h NI row2-row1	0.91403	0.743
Var 60h I row2-row1	1.25354	0.562
Var 60h NI row2-row1	0.9486	1
Time course 0hI-0hNI	1.02051	0.867
Time course 12hI-12hNI	0.80138	0.048
Time course 36hI-36hNI	0.91049	0.136
Time course 60hI-60hNI	1.03569	0.426

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)	0.8678	0.391
transgenic ySAMdc/azygous control (breaker)	1.54419	0.178
transgenic ySAMdc/azygous control (red)	1.23118	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93734	0.153

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06597	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84652	0.172
Manapal/WT (break)	0.78669	1
Manapal/WT (red)	1.02306	1