Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28824	0.863
27DAP/17DAP	2.29978	0.592
39DAP/27DAP	1.03304	0.876
41DAP/39DAP	1.6578	0.63
42DAP/41DAP	1.09581	1
43DAP/42DAP	0.94025	0.699
47DAP/43DAP	0.74308	0.28
52DAP/47DAP	1.86264	0.553
57DAP/52DAP	1.77409	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26159	0.116
17DAP/reference	0.97885	0.858
27DAP/reference	1.30198
39DAP/reference	1.11261	0.413
41DAP/reference	1.10336	1
42DAP/reference	0.52398
43DAP/reference	0.64533
47DAP/reference	1.51189	1
52DAP/reference	0.51322
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.815
39DAP/27DAP	0.84236
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.75227
43DAP/42DAP	3.3923	0.585
47DAP/43DAP	1.53005	0.359
52DAP/47DAP	N/A	N/A
57DAP/52DAP	1.52706	0.563
57DAP/7DAP	0.95325	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.28628	0.048
17DAP/reference	0.2315	0.011
27DAP/reference	0.42753	0.01
39DAP/reference	0.21628	0.011
41DAP/reference	0.15269	0.009
42DAP/reference	0.16777	0.01
43DAP/reference	0.32193	0.015
47DAP/reference	0.23368	0.026
52DAP/reference	0.18874	0.009
57DAP/reference	0.37846	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89641	0.607
17DAP/reference	0.37948
27DAP/reference	0.90483	0.423
39DAP/reference	N/A	N/A
41DAP/reference	1.12841
42DAP/reference	1.26817
43DAP/reference	1.16748	0.063
47DAP/reference	1.09383	0.169
52DAP/reference	1.01779
57DAP/reference	N/A	N/A

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.27865	0.018
17DAP/reference	0.90435	0.364
27DAP/reference	0.25887	0.022
39DAP/reference	0.23329	0.006
41DAP/reference	0.27544	0.014
42DAP/reference	0.28063	0.014
43DAP/reference	0.26515	0.012
47DAP/reference	N/A	N/A
52DAP/reference	0.25263	0.032
57DAP/reference	N/A	N/A

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.46494	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.75282
51DAP/34DAP	0.90054	0.727
52DAP/51DAP	1.68975	0.04
53DAP/52DAP	0.56014	0.051
55DAP/53DAP	1.28207	0.798
57DAP/55DAP	0.72921	0.548
62DAP/57DAP	0.90111	0.994
68DAP/62DAP	3.30181
68DAP/14DAP	1.37904

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

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

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	1.04663
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.76743
IL7-3/WTpooled	0.93323
IL12-4/WTpooled	0.73569	0.539
IL1-4/WTpooled	1.04814	1
WT/WTpooled	1.24361	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	N/A	N/A

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

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

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
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	N/A	N/A

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)	N/A	N/A
Manapal/WT (break)	1.5898	0.183
Manapal/WT (red)	1.39708	0.164