Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10184	0.725
27DAP/17DAP	1.15864	0.849
39DAP/27DAP	0.84028	0.482
41DAP/39DAP	1.43236	0.28
42DAP/41DAP	1.03626	1
43DAP/42DAP	1.13365	0.993
47DAP/43DAP	1.00362	0.89
52DAP/47DAP	1.14657	0.821
57DAP/52DAP	0.91234	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95698	0.336
17DAP/reference	1.02716	0.528
27DAP/reference	1.08056	0.239
39DAP/reference	1.0133	0.8
41DAP/reference	1.02054	0.91
42DAP/reference	0.90859	0.033
43DAP/reference	0.99359	0.84
47DAP/reference	0.86866	0.007
52DAP/reference	0.82351	0.069
57DAP/reference	0.8931	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96881	0.578
27DAP/17DAP	0.96414	0.724
39DAP/27DAP	1.07166	0.422
41DAP/39DAP	1.00601	1
42DAP/41DAP	0.9949	0.853
43DAP/42DAP	1.03141	0.554
47DAP/43DAP	1.02337	0.88
52DAP/47DAP	0.99488	0.962
57DAP/52DAP	1.02588	0.874
57DAP/7DAP	1.1317	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81163	0.146
17DAP/reference	0.78518	0.019
27DAP/reference	0.68506	0.011
39DAP/reference	0.81292	0.039
41DAP/reference	0.77014	0.015
42DAP/reference	0.76723	0.027
43DAP/reference	0.75303	0.019
47DAP/reference	0.77308	0.057
52DAP/reference	0.60506	0.012
57DAP/reference	0.73845	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06349	0.241
17DAP/reference	1.03432	0.806
27DAP/reference	0.8212	0.16
39DAP/reference	0.88738	0.257
41DAP/reference	0.8253	0.081
42DAP/reference	0.85505	0.055
43DAP/reference	0.99513	0.787
47DAP/reference	0.95749	0.214
52DAP/reference	0.99154	0.666
57DAP/reference	1.09579	0.755

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79336	0.043
17DAP/reference	0.93788	0.433
27DAP/reference	0.7487	0.036
39DAP/reference	0.70207	0.014
41DAP/reference	0.85222	0.086
42DAP/reference	0.73257	0.087
43DAP/reference	0.71609	0.037
47DAP/reference	0.89714	0.207
52DAP/reference	0.76476	0.177
57DAP/reference	0.54703	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99051	1
26DAP/20DAP	0.70773
34DAP/26DAP	0.97242	0.972
51DAP/34DAP	1.05988	0.637
52DAP/51DAP	0.92557
53DAP/52DAP	1.00973	1
55DAP/53DAP	0.96899	0.784
57DAP/55DAP	1.04717	0.865
62DAP/57DAP	1.0768	1
68DAP/62DAP	1.26308	0.448
68DAP/14DAP	0.9361	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88239	0.05

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.24748	0.073
Mature Green Tomato/Ripe Tomato	1.14444	0.948
Immature Eggplant/Mature Eggplant	2.82326	0.05
Ripe Pepper/Ripe Tomato	4.95972	1
Mature Eggplant/Ripe Tomato	1.91213	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01176	1
1-1-2/M82	0.99985	1
12-2/M82	1.05065	1
12-4/M82	1.24871	1
1-3/M82	0.85209	0.378
2-1-1/M82	1.18777	0.764
2-1/M82	1.09133
2-6/M82	1.17744	0.594
3-2/M82	0.99674
4-1-1/M82	0.94731	1
4-1/M82	0.84236	0.737
4-3-2/M82	0.89428	1
4-3/M82	0.94288	1
5-3/M82	0.94087	1
6-2/M82	1.02274	1
6-3/M82	1.02531	1
7-1/M82	1.0375	1
7-2/M82	1.06272	1
9-3-2/M82	0.77055	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.06013	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89373	1
IL12-4/WTpooled	0.86471	0.71
IL1-4/WTpooled	1.13794
WT/WTpooled	0.95478	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	1.03894	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93392	1
DC3000/delta hrp 6h	0.4053
DC3000/delta hrp 12h	1.20058	1
DC3000/delta hrp 24h	1.10817	0.322

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04706	0.441
DC3000 delta B/DC3000 delta AB	1.01917	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09398	1
Exp 36h	1.48624	1
Exp 60h	1.22209	1

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	1.02983	0.936
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)	0.79939	0.237
transgenic ySAMdc/azygous control (breaker)	1.72533	0.178
transgenic ySAMdc/azygous control (red)	1.00058	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02955	0.448

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7878	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97727	1
Manapal/WT (break)	0.51998	0.333
Manapal/WT (red)	0.60153	0.181