Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02473	1
27DAP/17DAP	0.78592	0.285
39DAP/27DAP	1.30368	0.667
41DAP/39DAP	0.88501	0.524
42DAP/41DAP	1.35934	0.877
43DAP/42DAP	0.98273	0.925
47DAP/43DAP	0.904	0.671
52DAP/47DAP	1.34436	0.449
57DAP/52DAP	1.08011	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.60933	0.105
17DAP/reference	1.57338	0.013
27DAP/reference	1.5123	0.008
39DAP/reference	1.68988	0.018
41DAP/reference	1.6337	0.145
42DAP/reference	1.48568	0.002
43DAP/reference	N/A	N/A
47DAP/reference	1.18626	0.199
52DAP/reference	1.29814	0.108
57DAP/reference	0.8221	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14434	0.148
27DAP/17DAP	0.97	0.748
39DAP/27DAP	0.80665	0.036
41DAP/39DAP	1.11017	0.59
42DAP/41DAP	0.95549	0.63
43DAP/42DAP	0.79977	0.022
47DAP/43DAP	1.00477	1
52DAP/47DAP	1.03209	0.883
57DAP/52DAP	1.03387	0.832
57DAP/7DAP	1.01514	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89147	0.108
17DAP/reference	0.88166	0.012
27DAP/reference	0.9115	0.035
39DAP/reference	0.97214	0.034
41DAP/reference	0.94141	0.056
42DAP/reference	0.97928	0.393
43DAP/reference	0.92578	0.017
47DAP/reference	1.0194	1
52DAP/reference	0.8915	0.066
57DAP/reference	0.89143	0.077

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33111	0.1
17DAP/reference	1.5314	0.017
27DAP/reference	1.39445	0.014
39DAP/reference	1.21149	0.093
41DAP/reference	1.3748	0.042
42DAP/reference	1.23204	0.133
43DAP/reference	1.57869	0.056
47DAP/reference	1.31563	0.008
52DAP/reference	1.26193	0.988
57DAP/reference	1.88961	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02476	0.804
17DAP/reference	1.14746	0.326
27DAP/reference	1.00135	0.805
39DAP/reference	1.01127	0.889
41DAP/reference	0.93934	0.05
42DAP/reference	1.00625	0.816
43DAP/reference	1.07903	0.655
47DAP/reference	1.48507	0.104
52DAP/reference	0.89069	0.228
57DAP/reference	0.66757	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.43936	0.966
26DAP/20DAP	1.04574	0.886
34DAP/26DAP	1.05674	0.819
51DAP/34DAP	1.04391	0.73
52DAP/51DAP	1.01059	0.939
53DAP/52DAP	0.93594	0.807
55DAP/53DAP	1.02727	0.82
57DAP/55DAP	0.99212	0.875
62DAP/57DAP	1.07548	1
68DAP/62DAP	0.79118	0.579
68DAP/14DAP	0.49321	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05062	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.46496	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.63861	1
Mature Eggplant/Ripe Tomato	0.26316	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19059	0.409
1-1-2/M82	0.96988	1
12-2/M82	1.16116	1
12-4/M82	1.02846
1-3/M82	0.98185	1
2-1-1/M82	1.18057	0.375
2-1/M82	1.30478	1
2-6/M82	1.01567	1
3-2/M82	1.07344
4-1-1/M82	1.00612	1
4-1/M82	1.10613	0.401
4-3-2/M82	0.84823	0.487
4-3/M82	0.99031	1
5-3/M82	0.94592	1
6-2/M82	0.79278	0.481
6-3/M82	1.11711	1
7-1/M82	1.06399	1
7-2/M82	1.08765	1
9-3-2/M82	0.82347	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.09303	0.277
IL2-6/WTpooled	1.11446	1
IL7-5/WTpooled	1.34679
IL7-3/WTpooled	1.20389	1
IL12-4/WTpooled	1.21843	0.624
IL1-4/WTpooled	1.2455	0.426
WT/WTpooled	0.8704	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	1.06782	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96699	1
DC3000/delta hrp 6h	3.30615
DC3000/delta hrp 12h	1.2377	1
DC3000/delta hrp 24h	1.01667	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97593	0.538
DC3000 delta B/DC3000 delta AB	0.9864	0.936

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	0.96387	1
Var 0h	1.14245	0.98
Var 12h I row2-row1	1.07412	0.324
Var 12h NI row2-row1	1.00223	1
Var 36h I row2-row1	0.84854	1
Var 36h NI row2-row1	1.04208	1
Var 60h I row2-row1	1.06833	0.543
Var 60h NI row2-row1	1.06978	0.904
Time course 0hI-0hNI	1.03758	0.764
Time course 12hI-12hNI	0.9996	1
Time course 36hI-36hNI	0.96351	0.284
Time course 60hI-60hNI	1.25569	0.008

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)	0.97568	0.789
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.69371	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86524	0.074

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20156	0.277

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)	0.68449	0.216