Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.8.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18026	0.67
27DAP/17DAP	0.89418	0.73
39DAP/27DAP	3.64914	0.126
41DAP/39DAP	0.85566	0.51
42DAP/41DAP	1.29982	0.825
43DAP/42DAP	1.17402	1
47DAP/43DAP	0.41891	0.049
52DAP/47DAP	0.79371	0.502
57DAP/52DAP	1.28482	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98867	0.645
17DAP/reference	1.02337	0.653
27DAP/reference	1.02937	0.648
39DAP/reference	1.1046	0.377
41DAP/reference	1.08495	0.287
42DAP/reference	0.89372	0.026
43DAP/reference	0.99468	0.861
47DAP/reference	0.85774	0.016
52DAP/reference	0.79572	0.086
57DAP/reference	0.86992	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.38134	0.033
27DAP/17DAP	1.40633	0.419
39DAP/27DAP	1.92901	0.308
41DAP/39DAP	1.47842	0.214
42DAP/41DAP	0.87186	0.256
43DAP/42DAP	1.28617	0.112
47DAP/43DAP	1.47143	0.078
52DAP/47DAP	0.61288	0.161
57DAP/52DAP	1.02441	0.929
57DAP/7DAP	0.96467	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69441	0.059
17DAP/reference	0.98754	0.518
27DAP/reference	0.97086	0.43
39DAP/reference	0.84458	0.027
41DAP/reference	0.86866	0.127
42DAP/reference	0.92737	0.304
43DAP/reference	0.90719	0.266
47DAP/reference	0.78137	0.044
52DAP/reference	0.81069	0.077
57DAP/reference	0.81239	0.023

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08685	0.507
17DAP/reference	0.98801	0.659
27DAP/reference	0.85957	0.119
39DAP/reference	0.90748	0.129
41DAP/reference	0.78499	0.074
42DAP/reference	0.83715	0.013
43DAP/reference	1.24739	0.135
47DAP/reference	0.94465	0.12
52DAP/reference	0.94675	0.239
57DAP/reference	1.27773	0.07

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74786	0.032
17DAP/reference	0.96367	0.592
27DAP/reference	1.06332	0.934
39DAP/reference	0.89528	0.163
41DAP/reference	0.91391	0.293
42DAP/reference	0.81835	0.172
43DAP/reference	0.75335	0.037
47DAP/reference	0.85857	0.125
52DAP/reference	0.78027	0.174
57DAP/reference	0.532	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09398	0.966
26DAP/20DAP	1.25716	0.477
34DAP/26DAP	0.83185	0.539
51DAP/34DAP	0.86137	0.274
52DAP/51DAP	0.94464	1
53DAP/52DAP	0.76827	0.235
55DAP/53DAP	1.08607	0.939
57DAP/55DAP	1.01276	0.955
62DAP/57DAP	1.01569	1
68DAP/62DAP	0.95776	0.81
68DAP/14DAP	0.97212	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	6.51981	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.48343	0.079
Immature Eggplant/Mature Eggplant	1.46616
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	1.04077	1
1-1-2/M82	1.90538	1
12-2/M82	0.8578
12-4/M82	1.73125	1
1-3/M82	0.57634
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.04859
3-2/M82	0.95333
4-1-1/M82	N/A	N/A
4-1/M82	2.53453	0.512
4-3-2/M82	3.33999
4-3/M82	0.73474	0.611
5-3/M82	1.03329	1
6-2/M82	0.78903
6-3/M82	1.04182	1
7-1/M82	0.87923	1
7-2/M82	1.00134	1
9-3-2/M82	2.52635	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98919	1
IL2-6/WTpooled	0.98742	1
IL7-5/WTpooled	0.88733	1
IL7-3/WTpooled	1.07752	1
IL12-4/WTpooled	1.11343	0.785
IL1-4/WTpooled	1.11858	0.426
WT/WTpooled	0.96374	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	1.51755	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06248	0.914
DC3000/delta hrp 6h	2.08673
DC3000/delta hrp 12h	1.08761	1
DC3000/delta hrp 24h	0.89917	0.241

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.73774	0.042
DC3000 delta B/DC3000 delta AB	3.24497	0.031

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	0.99402	1
Var 0h	0.98014	1
Var 12h I row2-row1	1.11036	0.736
Var 12h NI row2-row1	1.37184	0.281
Var 36h I row2-row1	1.33431	0.601
Var 36h NI row2-row1	0.57848	0.469
Var 60h I row2-row1	0.86817	0.582
Var 60h NI row2-row1	0.61467	0.292
Time course 0hI-0hNI	0.95623	0.787
Time course 12hI-12hNI	2.70944	0.005
Time course 36hI-36hNI	4.71916	0.004
Time course 60hI-60hNI	9.07424	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)	1.5055	0.798
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.28554	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98582	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8822	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14166	0.307
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.98849	1