Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.5.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24476	0.365
27DAP/17DAP	0.97325	0.963
39DAP/27DAP	0.80574	0.39
41DAP/39DAP	1.30016	0.28
42DAP/41DAP	1.13826	0.825
43DAP/42DAP	0.94839	0.877
47DAP/43DAP	1.2335	0.438
52DAP/47DAP	0.87216	0.639
57DAP/52DAP	0.96838	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.77678	0.038
17DAP/reference	1.16074	0.764
27DAP/reference	1.02165	1
39DAP/reference	0.96184
41DAP/reference	1.2761	0.312
42DAP/reference	1.24442	0.782
43DAP/reference	1.10152	0.705
47DAP/reference	1.05854	0.794
52DAP/reference	2.84349
57DAP/reference	0.87272	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87189	0.336
27DAP/17DAP	0.93648	0.614
39DAP/27DAP	1.05029	0.691
41DAP/39DAP	1.0398	1
42DAP/41DAP	0.97406	0.753
43DAP/42DAP	1.0362	0.664
47DAP/43DAP	1.02153	0.95
52DAP/47DAP	0.95999	0.913
57DAP/52DAP	0.88181	0.331
57DAP/7DAP	0.90142	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02687	0.843
17DAP/reference	0.89029	0.025
27DAP/reference	0.96571	0.303
39DAP/reference	0.86572	0.023
41DAP/reference	0.79058	0.016
42DAP/reference	0.92866	0.151
43DAP/reference	1.00787	1
47DAP/reference	0.81888	0.168
52DAP/reference	0.89551	0.022
57DAP/reference	0.93077	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16952	0.41
17DAP/reference	1.21125	0.181
27DAP/reference	0.72554	0.144
39DAP/reference	1.83587	0.639
41DAP/reference	2.42543	0.548
42DAP/reference	0.6332
43DAP/reference	1.34103	0.288
47DAP/reference	1.19717	0.712
52DAP/reference	1.29203	0.528
57DAP/reference	1.49925	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93079	0.127
17DAP/reference	0.88968	0.024
27DAP/reference	0.94948	0.089
39DAP/reference	0.94317	0.222
41DAP/reference	0.92082	0.07
42DAP/reference	0.798	0.108
43DAP/reference	0.86651	0.016
47DAP/reference	1.48654	0.018
52DAP/reference	1.05367	0.801
57DAP/reference	1.05457	0.564

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.72655	0.878
26DAP/20DAP	0.83982	0.512
34DAP/26DAP	1.03366	1
51DAP/34DAP	0.96361	0.737
52DAP/51DAP	1.1151	0.313
53DAP/52DAP	1.06871	0.753
55DAP/53DAP	1.07049	0.893
57DAP/55DAP	1.13427	0.969
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85806	0.155

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.07182	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	0.83501
12-2/M82	0.83674
12-4/M82	0.85793
1-3/M82	N/A	N/A
2-1-1/M82	1.08564
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.96535	1
4-1-1/M82	N/A	N/A
4-1/M82	1.46406	0.512
4-3-2/M82	0.92048	1
4-3/M82	0.59984
5-3/M82	1.02893
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86393
7-2/M82	N/A	N/A
9-3-2/M82	0.83671	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13474	0.277
IL2-6/WTpooled	0.94191	1
IL7-5/WTpooled	0.90613	1
IL7-3/WTpooled	1.12295	1
IL12-4/WTpooled	1.00283	1
IL1-4/WTpooled	1.28291	0.426
WT/WTpooled	0.95332	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	0.98608	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.8843
DC3000/delta hrp 24h	1.06725	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75175	0.05
DC3000 delta B/DC3000 delta AB	1.04128	0.579

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97361	1
Var 0h	1.08345	1
Var 12h I row2-row1	1.12783	0.613
Var 12h NI row2-row1	0.7203	0.488
Var 36h I row2-row1	1.05966	1
Var 36h NI row2-row1	1.08255	1
Var 60h I row2-row1	0.72111	0.582
Var 60h NI row2-row1	1.16762	1
Time course 0hI-0hNI	1.06511	0.867
Time course 12hI-12hNI	1.03849	0.668
Time course 36hI-36hNI	0.9497	0.366
Time course 60hI-60hNI	1.06053	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.76844	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.32412	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92537	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.27799	0.164