Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1511	0.863
27DAP/17DAP	0.59971	0.053
39DAP/27DAP	0.80383	0.512
41DAP/39DAP	1.95924	0.447
42DAP/41DAP	1.14022	1
43DAP/42DAP	1.38222	0.763
47DAP/43DAP	2.65369	0.825
52DAP/47DAP	1.46035	0.385
57DAP/52DAP	1.17364	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87778	0.087
17DAP/reference	0.95787	0.474
27DAP/reference	1.03464	0.831
39DAP/reference	0.94045	0.37
41DAP/reference	0.95542	0.434
42DAP/reference	0.95327	0.151
43DAP/reference	0.95182	0.41
47DAP/reference	1.08109	0.404
52DAP/reference	1.10274	0.766
57DAP/reference	1.10813	0.548

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58811	0.036
27DAP/17DAP	1.06496	0.969
39DAP/27DAP	1.24994	0.499
41DAP/39DAP	0.67034	0.042
42DAP/41DAP	1.54918	0.327
43DAP/42DAP	1.32963	0.094
47DAP/43DAP	1.05828	0.914
52DAP/47DAP	1.3581	0.224
57DAP/52DAP	1.16747	0.584
57DAP/7DAP	1.51071

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.94224	0.029
17DAP/reference	3.25881	0.006
27DAP/reference	2.69654	0.007
39DAP/reference	2.67565	0.005
41DAP/reference	2.57788	0.02
42DAP/reference	2.88512	0.008
43DAP/reference	4.88509	0.006
47DAP/reference	1.8175	0.224
52DAP/reference	3.17629	0.007
57DAP/reference	2.85928	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85694	0.129
17DAP/reference	0.78312	0.017
27DAP/reference	0.80606	0.074
39DAP/reference	0.9076	0.165
41DAP/reference	0.96822	0.364
42DAP/reference	0.85598	0.061
43DAP/reference	0.64357	0.017
47DAP/reference	0.90589	0.015
52DAP/reference	0.80855	0.004
57DAP/reference	0.70021	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.23191	0.02
17DAP/reference	1.38895	0.706
27DAP/reference	2.9478	0.018
39DAP/reference	2.51323	0.02
41DAP/reference	2.27215	0.009
42DAP/reference	2.25989	0.017
43DAP/reference	2.12189	0.037
47DAP/reference	1.10017	0.585
52DAP/reference	2.84865	0.071
57DAP/reference	2.05482	0.074

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98466	1
26DAP/20DAP	0.54875	0.317
34DAP/26DAP	1.10858	1
51DAP/34DAP	3.22993	0.022
52DAP/51DAP	0.59865	0.079
53DAP/52DAP	3.87281	0.016
55DAP/53DAP	1.15616	0.335
57DAP/55DAP	1.02545	0.855
62DAP/57DAP	0.43312	0.003
68DAP/62DAP	1.17893	0.778
68DAP/14DAP	2.23156	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9921	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.3516	0.077
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.40545	0.05
Ripe Pepper/Ripe Tomato	0.94619	1
Mature Eggplant/Ripe Tomato	0.47263	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.32228	0.591
1-1-2/M82	1.08198	1
12-2/M82	1.16605	1
12-4/M82	0.78199	0.282
1-3/M82	1.29737	0.479
2-1-1/M82	0.87024	0.784
2-1/M82	0.87077	0.322
2-6/M82	0.88781	1
3-2/M82	1.58991
4-1-1/M82	1.06442	1
4-1/M82	0.90395
4-3-2/M82	0.8296
4-3/M82	1.05005	1
5-3/M82	0.90806	1
6-2/M82	1.35309
6-3/M82	1.06839	1
7-1/M82	1.17163
7-2/M82	1.11909	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97672
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.76047	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05636	0.921
DC3000/delta hrp 6h	1.03458	1
DC3000/delta hrp 12h	1.10538	1
DC3000/delta hrp 24h	1.30096	0.535

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	1.30906

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09706	0.228
Exp 36h	1.27762	0.693
Exp 60h	1.30126	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.8387	1
Var 0h	0.82298	0.332
Var 12h I row2-row1	1.14127	0.692
Var 12h NI row2-row1	1.70507	1
Var 36h I row2-row1	1.04903	0.601
Var 36h NI row2-row1	1.24615	1
Var 60h I row2-row1	0.76086	0.285
Var 60h NI row2-row1	1.23379	1
Time course 0hI-0hNI	1.08207	1
Time course 12hI-12hNI	0.96833	0.87
Time course 36hI-36hNI	1.81262	0.017
Time course 60hI-60hNI	1.7857	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)	0.86378	0.229
transgenic ySAMdc/azygous control (breaker)	0.86038	0.251
transgenic ySAMdc/azygous control (red)	1.02844	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08876	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70438	0.238

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)	0.80175	0.207
Manapal/WT (red)	N/A	N/A