Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72602	0.19
27DAP/17DAP	1.10959	0.849
39DAP/27DAP	0.9282	0.663
41DAP/39DAP	1.20096	0.676
42DAP/41DAP	1.11121	0.941
43DAP/42DAP	0.94761	0.877
47DAP/43DAP	1.21782	0.246
52DAP/47DAP	1.07566	0.906
57DAP/52DAP	1.15627	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0617	0.587
17DAP/reference	1.08128	0.22
27DAP/reference	0.97028	0.514
39DAP/reference	1.09011	0.277
41DAP/reference	1.06818	0.312
42DAP/reference	1.07077	0.108
43DAP/reference	1.17994	0.009
47DAP/reference	0.98335	0.473
52DAP/reference	0.89392	0.189
57DAP/reference	0.89638	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06423	0.455
27DAP/17DAP	1.02204	0.932
39DAP/27DAP	0.85391	0.116
41DAP/39DAP	0.9659	0.885
42DAP/41DAP	1.09126	0.282
43DAP/42DAP	0.88883	0.058
47DAP/43DAP	1.04491	0.857
52DAP/47DAP	0.93995	0.763
57DAP/52DAP	0.87132	0.256
57DAP/7DAP	0.86599	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00968	1
17DAP/reference	0.98273	0.447
27DAP/reference	1.11372	0.041
39DAP/reference	0.91184	0.073
41DAP/reference	0.95636	0.116
42DAP/reference	0.97605	0.289
43DAP/reference	0.92093	0.054
47DAP/reference	1.0332	0.822
52DAP/reference	0.90997	0.115
57DAP/reference	0.96787	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16044	0.164
17DAP/reference	1.20054	0.008
27DAP/reference	1.17729	0.067
39DAP/reference	1.0868	0.324
41DAP/reference	0.96851	0.357
42DAP/reference	1.08634	0.294
43DAP/reference	1.3066	0.038
47DAP/reference	1.18691	0.02
52DAP/reference	1.20828	0.053
57DAP/reference	1.40136	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06475	0.793
17DAP/reference	1.09901	0.456
27DAP/reference	0.92232	0.113
39DAP/reference	0.94222	0.246
41DAP/reference	0.93822	0.148
42DAP/reference	0.91722	0.172
43DAP/reference	0.88669	0.143
47DAP/reference	0.97907	0.538
52DAP/reference	0.97385	0.663
57DAP/reference	0.73247	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95176	1
26DAP/20DAP	0.62519	0.151
34DAP/26DAP	1.03386	1
51DAP/34DAP	1.12094	0.224
52DAP/51DAP	1.01732	0.925
53DAP/52DAP	1.01091	1
55DAP/53DAP	1.05034	0.671
57DAP/55DAP	1.25523	0.461
62DAP/57DAP	1.09872	0.008
68DAP/62DAP	0.73048	0.068
68DAP/14DAP	0.91624	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66822	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.29141	0.058
Mature Green Tomato/Ripe Tomato	1.2022	0.149
Immature Eggplant/Mature Eggplant	1.40902	0.05
Ripe Pepper/Ripe Tomato	0.69799	0.293
Mature Eggplant/Ripe Tomato	2.15833	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16437
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.88484	1
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	0.73728
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	1.36455	1
5-3/M82	1.07884	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.95654
7-2/M82	1.11222
9-3-2/M82	1.05185

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78305	0.243
IL2-6/WTpooled	1.1571	0.584
IL7-5/WTpooled	1.10615	1
IL7-3/WTpooled	1.07275	1
IL12-4/WTpooled	1.04075	0.737
IL1-4/WTpooled	0.99856	1
WT/WTpooled	0.98327	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	0.96548	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93636	1
DC3000/delta hrp 6h	1.07059	1
DC3000/delta hrp 12h	1.10766	1
DC3000/delta hrp 24h	0.67633	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.40896	0.023
DC3000 delta B/DC3000 delta AB	0.4541	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92008	1
Exp 36h	1.12435	1
Exp 60h	1.17986	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99613	1
Var 0h	1.0443	1
Var 12h I row2-row1	0.82333	0.418
Var 12h NI row2-row1	0.96848	0.906
Var 36h I row2-row1	1.0129	1
Var 36h NI row2-row1	1.14575	1
Var 60h I row2-row1	0.99763	1
Var 60h NI row2-row1	1.22468	0.904
Time course 0hI-0hNI	0.96536	0.835
Time course 12hI-12hNI	1.01374	1
Time course 36hI-36hNI	0.91425	0.198
Time course 60hI-60hNI	0.16204	0.005

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)	0.85295	0.267
transgenic ySAMdc/azygous control (breaker)	0.95066	0.49
transgenic ySAMdc/azygous control (red)	1.02512	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07568	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09303	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91696	1
Manapal/WT (break)	0.86528	0.333
Manapal/WT (red)	0.82722	0.242