Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08226	0.798
27DAP/17DAP	1.26528	0.841
39DAP/27DAP	0.93007	0.631
41DAP/39DAP	1.25424	0.413
42DAP/41DAP	0.88065	1
43DAP/42DAP	1.08034	1
47DAP/43DAP	1.19306	0.513
52DAP/47DAP	0.9502	0.793
57DAP/52DAP	1.00424	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94153	0.362
17DAP/reference	0.92526	0.194
27DAP/reference	0.92725	0.232
39DAP/reference	0.92067	0.2
41DAP/reference	0.945	0.434
42DAP/reference	0.98152	0.384
43DAP/reference	0.98499	0.745
47DAP/reference	1.00056	0.674
52DAP/reference	0.99402	0.654
57DAP/reference	0.87824	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00808	1
27DAP/17DAP	1.02267	0.932
39DAP/27DAP	0.99048	0.977
41DAP/39DAP	1.00427	0.896
42DAP/41DAP	0.97753	0.762
43DAP/42DAP	1.05412	0.23
47DAP/43DAP	1.00118	1
52DAP/47DAP	0.94409	0.512
57DAP/52DAP	0.92345	0.209
57DAP/7DAP	0.97866	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89844	0.224
17DAP/reference	0.74842	0.011
27DAP/reference	0.75246	0.014
39DAP/reference	0.91019	0.23
41DAP/reference	0.77479	0.067
42DAP/reference	0.69917	0.026
43DAP/reference	0.78944	0.017
47DAP/reference	0.92561	0.504
52DAP/reference	0.88548	0.09
57DAP/reference	0.80307	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96858	0.623
17DAP/reference	1.04464	0.658
27DAP/reference	0.96107	0.423
39DAP/reference	0.91845	0.136
41DAP/reference	0.79689	0.016
42DAP/reference	0.91794	0.212
43DAP/reference	0.88139	0.09
47DAP/reference	0.96438	0.338
52DAP/reference	0.96117	0.38
57DAP/reference	0.95972	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93263	0.249
17DAP/reference	0.93304	0.305
27DAP/reference	0.77943	0.03
39DAP/reference	0.83772	0.01
41DAP/reference	0.91935	0.264
42DAP/reference	0.8973	0.287
43DAP/reference	0.89406	0.206
47DAP/reference	1.04901	0.519
52DAP/reference	0.85632	0.197
57DAP/reference	0.91736	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32097	0.752
26DAP/20DAP	1.07919	0.727
34DAP/26DAP	1.05698	0.819
51DAP/34DAP	1.03354	0.785
52DAP/51DAP	1.10479	0.335
53DAP/52DAP	1.01797	0.944
55DAP/53DAP	0.93601	0.462
57DAP/55DAP	1.18984	0.176
62DAP/57DAP	0.92664	0.681
68DAP/62DAP	0.89479	0.641
68DAP/14DAP	0.97825	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2994	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.2924	0.068
Mature Green Tomato/Ripe Tomato	0.98726	0.774
Immature Eggplant/Mature Eggplant	0.85359	0.069
Ripe Pepper/Ripe Tomato	1.19562	1
Mature Eggplant/Ripe Tomato	0.19024

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.57375
12-2/M82	N/A	N/A
12-4/M82	0.75802
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.01085
4-1-1/M82	N/A	N/A
4-1/M82	1.16683
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	0.85112	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12304
IL2-6/WTpooled	2.31499	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.26176	1
IL12-4/WTpooled	1.13155	1
IL1-4/WTpooled	1.35145	0.426
WT/WTpooled	1.08971	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	1.1267	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10859	0.921
DC3000/delta hrp 6h	1.0269	1
DC3000/delta hrp 12h	0.85278	1
DC3000/delta hrp 24h	0.69161	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12243	0.25
DC3000 delta B/DC3000 delta AB	1.17746	0.22

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04935	1
Exp 36h	0.91099	0.82
Exp 60h	0.91852	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9759	1
Var 0h	0.86352	1
Var 12h I row2-row1	0.94204	0.705
Var 12h NI row2-row1	1.06348	1
Var 36h I row2-row1	1.03234	1
Var 36h NI row2-row1	1.2947	1
Var 60h I row2-row1	0.86073	0.439
Var 60h NI row2-row1	0.99944	1
Time course 0hI-0hNI	1.04876	0.662
Time course 12hI-12hNI	0.96134	0.705
Time course 36hI-36hNI	1.12499	0.19
Time course 60hI-60hNI	1.07316	0.359

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)	1.17987	0.212
transgenic ySAMdc/azygous control (breaker)	1.01295	1
transgenic ySAMdc/azygous control (red)	1.05426	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04607	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03223	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.58968	0.09
Manapal/WT (break)	1.00376	1
Manapal/WT (red)	1.26474	0.413