Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.8.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15028	0.755
27DAP/17DAP	2.89523	0.613
39DAP/27DAP	0.6861	0.487
41DAP/39DAP	1.35947	0.231
42DAP/41DAP	0.89049	0.774
43DAP/42DAP	1.1269	1
47DAP/43DAP	1.30732	0.926
52DAP/47DAP	1.37965	0.333
57DAP/52DAP	1.17315	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.40899
17DAP/reference	0.89825	0.664
27DAP/reference	0.67553	0.232
39DAP/reference	0.69735	0.164
41DAP/reference	N/A	N/A
42DAP/reference	1.87535
43DAP/reference	0.81097
47DAP/reference	0.61884	0.004
52DAP/reference	0.52589	0.086
57DAP/reference	1.02933	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2133	0.687
27DAP/17DAP	1.9406	0.295
39DAP/27DAP	0.94378	0.712
41DAP/39DAP	1.49104	0.407
42DAP/41DAP	1.35629	0.961
43DAP/42DAP	1.08838	1
47DAP/43DAP	0.91409	0.647
52DAP/47DAP	1.48255	0.907
57DAP/52DAP	1.16114	0.971
57DAP/7DAP	0.88104

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.62937	0.039
17DAP/reference	0.9905	0.693
27DAP/reference	1.13667	1
39DAP/reference	0.86808	0.198
41DAP/reference	0.94191	0.235
42DAP/reference	0.88621	0.275
43DAP/reference	0.89784	0.202
47DAP/reference	1.50326	0.115
52DAP/reference	1.26004	0.401
57DAP/reference	1.09848	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15939	0.484
17DAP/reference	1.25684	0.471
27DAP/reference	1.32717	0.095
39DAP/reference	0.89533	0.322
41DAP/reference	1.01588	0.601
42DAP/reference	1.27081	1
43DAP/reference	0.63462	0.016
47DAP/reference	1.22605	0.256
52DAP/reference	0.92498	0.327
57DAP/reference	1.29034	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9102	0.489
17DAP/reference	0.89976	0.647
27DAP/reference	1.71513	0.024
39DAP/reference	0.61691
41DAP/reference	1.54455	0.022
42DAP/reference	1.2674	0.364
43DAP/reference	1.42479	0.205
47DAP/reference	1.03772	0.687
52DAP/reference	1.42706	0.262
57DAP/reference	1.69106	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40331
26DAP/20DAP	0.76271	0.244
34DAP/26DAP	1.71787	1
51DAP/34DAP	0.92753	0.758
52DAP/51DAP	0.92235	1
53DAP/52DAP	1.0832	0.935
55DAP/53DAP	1.46613	0.252
57DAP/55DAP	0.99695	0.904
62DAP/57DAP	1.20587	0.678
68DAP/62DAP	1.41239	0.422
68DAP/14DAP	0.48658

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.28287

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.60263
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	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98948	1
IL2-6/WTpooled	0.56225
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.35611	0.362
IL12-4/WTpooled	0.5814	0.543
IL1-4/WTpooled	1.14161	1
WT/WTpooled	0.84385	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	2.39525

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99574	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.02947	1
DC3000/delta hrp 24h	0.91548	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.36901	0.043
DC3000 delta B/DC3000 delta AB	1.23703	0.186

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	1.27567	1
Var 0h	0.86469	0.933
Var 12h I row2-row1	0.69452	0.254
Var 12h NI row2-row1	1.04089	1
Var 36h I row2-row1	0.76435	1
Var 36h NI row2-row1	0.56569	0.706
Var 60h I row2-row1	1.04995	1
Var 60h NI row2-row1	0.4988	0.866
Time course 0hI-0hNI	1.02163	0.867
Time course 12hI-12hNI	0.90355	0.682
Time course 36hI-36hNI	0.82836	0.265
Time course 60hI-60hNI	0.58923	0.026

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)	2.12501	1
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	6.31107	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.47121	0.096
Manapal/WT (break)	1.17683	0.381
Manapal/WT (red)	N/A	N/A