Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07771	1
27DAP/17DAP	0.88204	0.704
39DAP/27DAP	1.2776	0.618
41DAP/39DAP	0.93263	0.67
42DAP/41DAP	0.92177	1
43DAP/42DAP	0.92591	0.806
47DAP/43DAP	0.82158	0.455
52DAP/47DAP	1.02409	0.971
57DAP/52DAP	1.18273	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80331	0.089
17DAP/reference	0.8295	0.069
27DAP/reference	0.96976	0.61
39DAP/reference	0.87009	0.184
41DAP/reference	0.76624	0.049
42DAP/reference	0.97498	0.225
43DAP/reference	1.03637	0.787
47DAP/reference	1.04652	0.365
52DAP/reference	1.09079	0.176
57DAP/reference	1.07494	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99372	0.801
27DAP/17DAP	1.16867	0.383
39DAP/27DAP	1.18261	0.505
41DAP/39DAP	0.52	0.038
42DAP/41DAP	0.95409	0.612
43DAP/42DAP	1.45177	0.022
47DAP/43DAP	0.92438	0.457
52DAP/47DAP	0.99881	0.935
57DAP/52DAP	0.89177	0.349
57DAP/7DAP	1.14394	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.15395	0.032
17DAP/reference	2.19155	0.006
27DAP/reference	1.64452	0.006
39DAP/reference	3.2118	0.005
41DAP/reference	2.26403	0.015
42DAP/reference	3.22505	0.006
43DAP/reference	4.19392	0.006
47DAP/reference	2.31796	0.049
52DAP/reference	3.87222	0.007
57DAP/reference	2.93936	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85122	0.238
17DAP/reference	1.01838	0.447
27DAP/reference	1.09373	0.682
39DAP/reference	1.42856	0.014
41DAP/reference	1.20559	0.153
42DAP/reference	1.11822	0.309
43DAP/reference	0.96733	0.478
47DAP/reference	1.00619	0.79
52DAP/reference	1.01535	0.938
57DAP/reference	0.80569	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.7387	0.039
17DAP/reference	1.08941	0.824
27DAP/reference	1.49171	0.034
39DAP/reference	1.90302	0.011
41DAP/reference	1.36905	0.01
42DAP/reference	2.01655	0.007
43DAP/reference	2.00318	0.006
47DAP/reference	1.05502	0.901
52DAP/reference	2.30048	0.072
57DAP/reference	2.39291	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94394	1
26DAP/20DAP	1.32629	0.818
34DAP/26DAP	0.93163	0.816
51DAP/34DAP	1.54787	0.416
52DAP/51DAP	1.31178	0.073
53DAP/52DAP	1.13306	0.458
55DAP/53DAP	0.98771	0.852
57DAP/55DAP	1.23565	0.543
62DAP/57DAP	1.4114
68DAP/62DAP	1.06498	0.813
68DAP/14DAP	1.26616	0.067

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70901	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00718	1
Mature Green Tomato/Ripe Tomato	4.56307	0.016
Immature Eggplant/Mature Eggplant	0.84366	0.084
Ripe Pepper/Ripe Tomato	0.90523	1
Mature Eggplant/Ripe Tomato	1.44098	1

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	0.93873
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	1.11047	1
4-3/M82	N/A	N/A
5-3/M82	0.57492
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.06917
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	0.78762	1
IL2-6/WTpooled	1.89014
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82631
IL12-4/WTpooled	1.09691	0.891
IL1-4/WTpooled	1.03772	1
WT/WTpooled	0.89453	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	1.91064	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.31097
DC3000/delta hrp 6h	0.98311	0.95
DC3000/delta hrp 12h	1.11723	1
DC3000/delta hrp 24h	0.66356	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30181	0.087
DC3000 delta B/DC3000 delta AB	1.40015	0.162

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17283	1
Exp 36h	1.00954	1
Exp 60h	1.17595	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97228	1
Var 0h	1.11257	0.98
Var 12h I row2-row1	1.17909	0.544
Var 12h NI row2-row1	1.23507	0.649
Var 36h I row2-row1	1.00317	1
Var 36h NI row2-row1	1.26231	1
Var 60h I row2-row1	0.75123	0.285
Var 60h NI row2-row1	0.9099	0.866
Time course 0hI-0hNI	1.06905	0.574
Time course 12hI-12hNI	0.91804	0.501
Time course 36hI-36hNI	1.17201	0.101
Time course 60hI-60hNI	1.82524	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)	1.04608	0.372
transgenic ySAMdc/azygous control (breaker)	0.95454	0.49
transgenic ySAMdc/azygous control (red)	1.02355	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.11371	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0639	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.78676	0.093
Manapal/WT (break)	1.12821	0.183
Manapal/WT (red)	1.2541	0.413