Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.2.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73782	0.042
27DAP/17DAP	0.92063	0.843
39DAP/27DAP	1.96806	0.148
41DAP/39DAP	0.80562	0.308
42DAP/41DAP	1.60377	0.466
43DAP/42DAP	0.97451	0.914
47DAP/43DAP	0.84522	0.517
52DAP/47DAP	1.11503	0.926
57DAP/52DAP	1.44537	0.737

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19721	0.038
17DAP/reference	0.75369	0.009
27DAP/reference	0.96099	0.552
39DAP/reference	0.8781	0.114
41DAP/reference	0.86794	0.085
42DAP/reference	1.10859	0.055
43DAP/reference	0.79122	0.063
47DAP/reference	1.02513	0.989
52DAP/reference	1.24486	0.43
57DAP/reference	1.35934	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90362	0.35
27DAP/17DAP	1.08613	0.604
39DAP/27DAP	0.93106	0.111
41DAP/39DAP	1.24929	0.087
42DAP/41DAP	0.88692	0.241
43DAP/42DAP	1.00439	1
47DAP/43DAP	1.07889	0.471
52DAP/47DAP	0.78072	0.22
57DAP/52DAP	1.16379	0.457
57DAP/7DAP	1.24894	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08549	0.452
17DAP/reference	1.06771	0.574
27DAP/reference	1.1753	0.16
39DAP/reference	0.91376	0.198
41DAP/reference	1.13594	0.701
42DAP/reference	1.4058	0.233
43DAP/reference	1.13321	1
47DAP/reference	1.18069	0.504
52DAP/reference	0.79375	0.057
57DAP/reference	0.90934	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24329	0.21
17DAP/reference	1.15548	0.113
27DAP/reference	1.30772	0.026
39DAP/reference	1.24406	0.023
41DAP/reference	1.23787	0.057
42DAP/reference	1.56742	0.007
43DAP/reference	0.95891	0.486
47DAP/reference	1.33128	0.02
52DAP/reference	1.2041	0.038
57DAP/reference	0.99542	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29405	0.218
17DAP/reference	1.50404	0.321
27DAP/reference	1.10596	0.575
39DAP/reference	1.17643	0.017
41DAP/reference	0.79328	0.043
42DAP/reference	2.31398	0.019
43DAP/reference	1.67747	0.024
47DAP/reference	1.09234	0.68
52DAP/reference	0.92425
57DAP/reference	1.77936	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05552	1
26DAP/20DAP	1.15175	0.453
34DAP/26DAP	1.30771	1
51DAP/34DAP	1.20366	0.524
52DAP/51DAP	0.81142	1
53DAP/52DAP	0.7543	0.177
55DAP/53DAP	0.89693	0.648
57DAP/55DAP	0.85137	0.532
62DAP/57DAP	1.09636	0.003
68DAP/62DAP	1.38835	0.609
68DAP/14DAP	3.82953	0.125

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.81651	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.23948	0.058
Mature Green Tomato/Ripe Tomato	1.37651	0.134
Immature Eggplant/Mature Eggplant	0.89013	0.096
Ripe Pepper/Ripe Tomato	0.87703	1
Mature Eggplant/Ripe Tomato	1.18618	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96844	0.944
1-1-2/M82	1.28519	1
12-2/M82	0.88907	0.955
12-4/M82	0.96447	1
1-3/M82	1.39847	0.26
2-1-1/M82	0.97872	1
2-1/M82	0.84215	0.345
2-6/M82	0.96419	1
3-2/M82	0.99385	1
4-1-1/M82	1.10753	1
4-1/M82	0.82902
4-3-2/M82	1.6719
4-3/M82	1.46018	0.268
5-3/M82	1.06121	1
6-2/M82	1.35077	0.253
6-3/M82	1.0328	1
7-1/M82	1.14566	1
7-2/M82	0.89188	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99852	1
IL2-6/WTpooled	1.11844	0.427
IL7-5/WTpooled	0.61089	1
IL7-3/WTpooled	1.13216	1
IL12-4/WTpooled	0.80366	0.71
IL1-4/WTpooled	1.25253	1
WT/WTpooled	0.98925	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	1.29663	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07267	0.894
DC3000/delta hrp 6h	0.83239	0.942
DC3000/delta hrp 12h	1.03264	1
DC3000/delta hrp 24h	1.62439	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95586	0.538
DC3000 delta B/DC3000 delta AB	0.94503	0.849

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87435	1
Exp 36h	1.15419	1
Exp 60h	0.99482	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95403	1
Var 0h	1.01992	0.98
Var 12h I row2-row1	0.99025	1
Var 12h NI row2-row1	1.14443	1
Var 36h I row2-row1	1.2053	0.41
Var 36h NI row2-row1	1.10692	0.482
Var 60h I row2-row1	0.53868
Var 60h NI row2-row1	1.10382	1
Time course 0hI-0hNI	0.91758	0.618
Time course 12hI-12hNI	1.12641	0.567
Time course 36hI-36hNI	1.58852	0.01
Time course 60hI-60hNI	1.9235	0.029

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)	0.89779	0.314
transgenic ySAMdc/azygous control (breaker)	1.35209	0.248
transgenic ySAMdc/azygous control (red)	1.33223	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14469	0.039

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92648	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9982	1
Manapal/WT (break)	1.10591	0.381
Manapal/WT (red)	1.35386	0.222