Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.6.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81277	0.182
27DAP/17DAP	1.0543	0.88
39DAP/27DAP	0.8328	0.352
41DAP/39DAP	1.10554	0.78
42DAP/41DAP	1.05572	1
43DAP/42DAP	1.00346	0.937
47DAP/43DAP	1.16733	0.943
52DAP/47DAP	1.08693	0.891
57DAP/52DAP	0.713	0.503

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08828	0.252
17DAP/reference	1.06776	0.096
27DAP/reference	0.92212	0.163
39DAP/reference	1.00094	0.991
41DAP/reference	1.10975	0.014
42DAP/reference	0.96905	0.134
43DAP/reference	1.08112	0.152
47DAP/reference	1.01593	0.937
52DAP/reference	0.99705	0.668
57DAP/reference	0.89924	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08775	0.785
27DAP/17DAP	0.97473	0.887
39DAP/27DAP	1.11996	0.441
41DAP/39DAP	0.90569	0.662
42DAP/41DAP	1.29514	0.389
43DAP/42DAP	0.96672	0.751
47DAP/43DAP	1.15362	0.508
52DAP/47DAP	0.96208	0.9
57DAP/52DAP	1.05041	0.838
57DAP/7DAP	1.38184	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25972	0.223
17DAP/reference	1.27119	0.077
27DAP/reference	1.40564	0.16
39DAP/reference	1.11622	0.107
41DAP/reference	1.13436	0.191
42DAP/reference	0.97238	0.506
43DAP/reference	1.03727	1
47DAP/reference	1.07718	0.561
52DAP/reference	1.27985	0.113
57DAP/reference	1.0643	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95919	0.592
17DAP/reference	1.05736	0.32
27DAP/reference	1.13337	0.265
39DAP/reference	1.10096	0.194
41DAP/reference	1.05819	0.427
42DAP/reference	0.94123	0.212
43DAP/reference	0.98383	0.657
47DAP/reference	0.96672	0.423
52DAP/reference	1.15882	0.012
57DAP/reference	1.21141	0.051

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16052	0.055
17DAP/reference	0.8672	0.462
27DAP/reference	1.13199	0.207
39DAP/reference	0.92852	0.076
41DAP/reference	1.10307	0.455
42DAP/reference	1.17336	0.356
43DAP/reference	1.22627	0.25
47DAP/reference	0.99814	0.687
52DAP/reference	1.02397	0.813
57DAP/reference	0.79603	0.034

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08602	0.966
26DAP/20DAP	1.69203
34DAP/26DAP	1.13073	1
51DAP/34DAP	1.25815	0.613
52DAP/51DAP	0.83765	1
53DAP/52DAP	0.85571	0.358
55DAP/53DAP	1.48684	0.468
57DAP/55DAP	0.91188	0.633
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.40307	0.597
68DAP/14DAP	1.0709	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85064	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.67453	0.058
Mature Green Tomato/Ripe Tomato	0.8671	0.377
Immature Eggplant/Mature Eggplant	1.19819	0.13
Ripe Pepper/Ripe Tomato	1.31034	1
Mature Eggplant/Ripe Tomato	1.07105	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00895	1
1-1-2/M82	1.11402	1
12-2/M82	1.46793	0.519
12-4/M82	0.9629	1
1-3/M82	0.90914	1
2-1-1/M82	1.0952	0.764
2-1/M82	0.84682	0.345
2-6/M82	1.05391	0.695
3-2/M82	0.78026
4-1-1/M82	0.86453	1
4-1/M82	N/A	N/A
4-3-2/M82	1.12321	1
4-3/M82	1.02422	1
5-3/M82	0.90203	0.642
6-2/M82	N/A	N/A
6-3/M82	1.18683	1
7-1/M82	0.77192	0.803
7-2/M82	1.10709	1
9-3-2/M82	1.06014	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27181	0.277
IL2-6/WTpooled	1.02032	1
IL7-5/WTpooled	0.7662	1
IL7-3/WTpooled	1.11329	1
IL12-4/WTpooled	0.93201	1
IL1-4/WTpooled	1.01483	1
WT/WTpooled	0.92616	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	0.91715	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08212
DC3000/delta hrp 6h	1.07393	0.672
DC3000/delta hrp 12h	0.91982	1
DC3000/delta hrp 24h	0.95913	0.711

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.4761
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	0.9941	1
Exp 36h	1.69218	1
Exp 60h	1.31103	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98231	1
Var 0h	1.55666	0.936
Var 12h I row2-row1	1.0714	0.654
Var 12h NI row2-row1	1.00486	1
Var 36h I row2-row1	0.88025	0.805
Var 36h NI row2-row1	1.08469	1
Var 60h I row2-row1	1.02642	0.543
Var 60h NI row2-row1	0.93533	1
Time course 0hI-0hNI	0.97474	0.852
Time course 12hI-12hNI	0.98763	0.95
Time course 36hI-36hNI	0.88997	0.25
Time course 60hI-60hNI	0.62489	0.006

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)	1.36554	0.221
transgenic ySAMdc/azygous control (breaker)	1.00766	1
transgenic ySAMdc/azygous control (red)	0.94247	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06614	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87377	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.50793	0.172
Manapal/WT (break)	1.03625	1
Manapal/WT (red)	1.43754	0.137