Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.17.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89569	0.503
27DAP/17DAP	1.98676	0.62
39DAP/27DAP	1.10048	0.974
41DAP/39DAP	1.00874	1
42DAP/41DAP	1.09286	0.971
43DAP/42DAP	1.22886	1
47DAP/43DAP	1.25839	0.412
52DAP/47DAP	1.34398	0.624
57DAP/52DAP	1.01301	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90233	0.211
17DAP/reference	0.93678	0.26
27DAP/reference	0.90884	0.182
39DAP/reference	0.90432	0.254
41DAP/reference	0.83521	0.021
42DAP/reference	0.91531	0.019
43DAP/reference	0.91018	0.103
47DAP/reference	0.93492	0.06
52DAP/reference	0.90482	0.075
57DAP/reference	0.9971	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84247	0.336
27DAP/17DAP	0.92489	0.724
39DAP/27DAP	1.03104	0.898
41DAP/39DAP	1.00134	0.98
42DAP/41DAP	1.16813	0.273
43DAP/42DAP	0.91619	0.538
47DAP/43DAP	0.81773	0.29
52DAP/47DAP	0.99041	0.902
57DAP/52DAP	1.06652	0.759
57DAP/7DAP	1.02435

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.56142	0.115
17DAP/reference	0.63054	0.028
27DAP/reference	0.67419	0.024
39DAP/reference	0.75985	0.039
41DAP/reference	0.90677	0.271
42DAP/reference	1.26219	0.059
43DAP/reference	0.7539	0.027
47DAP/reference	0.81683	0.057
52DAP/reference	0.80487	0.15
57DAP/reference	1.17399	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89277	0.277
17DAP/reference	0.91118	0.095
27DAP/reference	0.92969	0.257
39DAP/reference	0.85701	0.087
41DAP/reference	0.91593	0.177
42DAP/reference	0.96019	0.392
43DAP/reference	0.94397	0.486
47DAP/reference	0.85265	0.053
52DAP/reference	0.9839	0.537
57DAP/reference	0.81867	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82597	0.311
17DAP/reference	0.92436	0.381
27DAP/reference	0.92555	0.624
39DAP/reference	0.9203	0.36
41DAP/reference	0.77123	0.237
42DAP/reference	0.92792	0.445
43DAP/reference	1.12834	0.685
47DAP/reference	0.95287	0.452
52DAP/reference	1.37875	0.301
57DAP/reference	0.96763	0.468

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18571	0.966
26DAP/20DAP	0.7354	0.151
34DAP/26DAP	0.79465	0.319
51DAP/34DAP	1.16419	0.775
52DAP/51DAP	1.32201	0.349
53DAP/52DAP	1.02886	0.99
55DAP/53DAP	0.92934	0.632
57DAP/55DAP	1.4558	0.348
62DAP/57DAP	0.94183	0.871
68DAP/62DAP	1.47827	0.057
68DAP/14DAP	1.17424	0.419

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81318	0.046

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.72144	0.256
Immature Eggplant/Mature Eggplant	1.23001
Ripe Pepper/Ripe Tomato	1.11823	1
Mature Eggplant/Ripe Tomato	2.25998

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00281
12-2/M82	N/A	N/A
12-4/M82	1.07408	0.694
1-3/M82	0.67569	0.32
2-1-1/M82	0.93035
2-1/M82	N/A	N/A
2-6/M82	0.99934	1
3-2/M82	0.90071
4-1-1/M82	N/A	N/A
4-1/M82	1.12436
4-3-2/M82	N/A	N/A
4-3/M82	0.85379	0.551
5-3/M82	1.08392	1
6-2/M82	1.02046
6-3/M82	1.04326	1
7-1/M82	0.77129	0.466
7-2/M82	0.9001	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95745	1
IL2-6/WTpooled	1.0306	0.788
IL7-5/WTpooled	0.658	1
IL7-3/WTpooled	0.97691	1
IL12-4/WTpooled	1.15786	0.695
IL1-4/WTpooled	1.01143	1
WT/WTpooled	1.04726	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01271	1
DC3000/delta hrp 6h	0.9328	0.95
DC3000/delta hrp 12h	1.02455	1
DC3000/delta hrp 24h	1.04604	0.71

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	N/A	N/A
Exp 36h	1.07533	1
Exp 60h	1.26082	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	0.8318
Var 0h	0.74576	0.291
Var 12h I row2-row1	1.21515
Var 12h NI row2-row1	0.78507	0.713
Var 36h I row2-row1	0.71959
Var 36h NI row2-row1	1.68376	1
Var 60h I row2-row1	0.76216	0.952
Var 60h NI row2-row1	1.41306	1
Time course 0hI-0hNI	1.18763	0.867
Time course 12hI-12hNI	0.75815	0.854
Time course 36hI-36hNI	1.05124	0.58
Time course 60hI-60hNI	1.32946	0.022

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)	1.03957	0.699
transgenic ySAMdc/azygous control (breaker)	1.1798	0.178
transgenic ySAMdc/azygous control (red)	1.04045	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98613	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8812	1
Manapal/WT (break)	0.9537	1
Manapal/WT (red)	0.86412	0.216