Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87875	0.173
27DAP/17DAP	1.00455	1
39DAP/27DAP	0.84235	0.402
41DAP/39DAP	1.32498	0.612
42DAP/41DAP	1.10731	0.873
43DAP/42DAP	0.93988	0.697
47DAP/43DAP	1.01256	0.904
52DAP/47DAP	1.04304	0.93
57DAP/52DAP	0.95542	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0597	0.522
17DAP/reference	1.02841	0.154
27DAP/reference	1.02771	0.648
39DAP/reference	1.02413	0.534
41DAP/reference	1.0419	0.393
42DAP/reference	0.97736	0.268
43DAP/reference	0.98841	0.763
47DAP/reference	1.01164	0.989
52DAP/reference	0.89557	0.258
57DAP/reference	0.98097	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94186	0.388
27DAP/17DAP	1.00474	0.995
39DAP/27DAP	1.09185	0.447
41DAP/39DAP	1.06609	0.727
42DAP/41DAP	0.93164	0.42
43DAP/42DAP	1.02018	0.585
47DAP/43DAP	1.05408	0.65
52DAP/47DAP	1.01605	0.933
57DAP/52DAP	0.95136	0.451
57DAP/7DAP	0.96418	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01632	1
17DAP/reference	1.07674	0.754
27DAP/reference	1.01381	1
39DAP/reference	1.15381	0.351
41DAP/reference	1.29892	0.062
42DAP/reference	1.18112	0.024
43DAP/reference	1.08207	0.432
47DAP/reference	0.98851	0.671
52DAP/reference	1.14741	0.308
57DAP/reference	1.27738	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02003	0.863
17DAP/reference	1.07269	0.127
27DAP/reference	0.95321	0.317
39DAP/reference	0.9665	0.348
41DAP/reference	0.92458	0.137
42DAP/reference	0.86896	0.019
43DAP/reference	0.93114	0.361
47DAP/reference	0.96512	0.319
52DAP/reference	1.02148	0.747
57DAP/reference	1.05699	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13896	0.103
17DAP/reference	1.01383	1
27DAP/reference	1.08249	0.34
39DAP/reference	1.25188	0.045
41DAP/reference	1.06893	0.84
42DAP/reference	0.92004	0.287
43DAP/reference	0.97497	0.59
47DAP/reference	0.98047	0.494
52DAP/reference	1.26952	0.241
57DAP/reference	0.78213	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9876	1
26DAP/20DAP	0.93722	1
34DAP/26DAP	0.99072	1
51DAP/34DAP	1.04418	0.775
52DAP/51DAP	0.9516	1
53DAP/52DAP	0.96038	0.835
55DAP/53DAP	0.96973	0.761
57DAP/55DAP	1.06446	0.779
62DAP/57DAP	1.1602	0.047
68DAP/62DAP	1.10413	0.872
68DAP/14DAP	1.03537	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89198	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.71392
Mature Green Tomato/Ripe Tomato	1.04497	0.835
Immature Eggplant/Mature Eggplant	1.19471	0.07
Ripe Pepper/Ripe Tomato	1.13449	1
Mature Eggplant/Ripe Tomato	2.42533	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94686	0.934
1-1-2/M82	0.94964	1
12-2/M82	1.08181	0.61
12-4/M82	1.02213	1
1-3/M82	0.91404	0.501
2-1-1/M82	1.06228	1
2-1/M82	1.06084	1
2-6/M82	1.01031	0.695
3-2/M82	0.73802
4-1-1/M82	0.87267	0.668
4-1/M82	1.08608
4-3-2/M82	0.9739	1
4-3/M82	1.04752	1
5-3/M82	1.05816	1
6-2/M82	1.03973	1
6-3/M82	0.99634	1
7-1/M82	0.96365	1
7-2/M82	0.99465	1
9-3-2/M82	0.80273	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0187	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97767	1
IL12-4/WTpooled	1.02958	0.839
IL1-4/WTpooled	0.857
WT/WTpooled	1.00297	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	1.12557	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02954	0.914
DC3000/delta hrp 6h	0.98816	0.95
DC3000/delta hrp 12h	1.00277	1
DC3000/delta hrp 24h	1.00044	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09046	0.134
DC3000 delta B/DC3000 delta AB	1.08961	0.394

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.64783	1
Exp 36h	0.83555	0.661
Exp 60h	0.93998	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00385	1
Var 0h	0.86904	1
Var 12h I row2-row1	1.04654	0.736
Var 12h NI row2-row1	0.96423	0.713
Var 36h I row2-row1	1.18291	0.41
Var 36h NI row2-row1	0.96789	0.852
Var 60h I row2-row1	1.11819	0.483
Var 60h NI row2-row1	1.15638	0.904
Time course 0hI-0hNI	1.01594	1
Time course 12hI-12hNI	1.04927	0.672
Time course 36hI-36hNI	1.59573	0.005
Time course 60hI-60hNI	1.44634	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)	1.01881	0.748
transgenic ySAMdc/azygous control (breaker)	0.87166	0.173
transgenic ySAMdc/azygous control (red)	1.21678	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98846	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92465	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09029	0.307
Manapal/WT (break)	1.05937	1
Manapal/WT (red)	1.27905	0.164