Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.17.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07829	0.932
27DAP/17DAP	1.83928	0.38
39DAP/27DAP	0.90448	0.608
41DAP/39DAP	1.08503	1
42DAP/41DAP	1.38427	0.877
43DAP/42DAP	0.88048	0.698
47DAP/43DAP	0.94209	0.773
52DAP/47DAP	1.31078	0.729
57DAP/52DAP	1.29007	0.746

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01453	1
17DAP/reference	1.14033	0.138
27DAP/reference	1.18812	0.239
39DAP/reference	1.23987	0.122
41DAP/reference	1.51949	0.013
42DAP/reference	1.50617	0.001
43DAP/reference	1.10999	0.325
47DAP/reference	1.42692	0.02
52DAP/reference	1.64883	0.008
57DAP/reference	1.34761	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99904	0.899
27DAP/17DAP	0.99057	0.919
39DAP/27DAP	1.16193	0.496
41DAP/39DAP	1.17744	0.807
42DAP/41DAP	0.94422	0.617
43DAP/42DAP	1.07631	0.212
47DAP/43DAP	1.02048	0.923
52DAP/47DAP	1.05319	0.965
57DAP/52DAP	0.97544	0.789
57DAP/7DAP	1.13368	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93498	0.296
17DAP/reference	0.90143	0.253
27DAP/reference	1.24961	0.014
39DAP/reference	0.8558	0.083
41DAP/reference	0.8859	0.203
42DAP/reference	0.82007	0.086
43DAP/reference	0.90144	0.132
47DAP/reference	1.07483	0.791
52DAP/reference	1.12854	0.071
57DAP/reference	0.99759	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05655	0.903
17DAP/reference	2.01118	0.008
27DAP/reference	1.88419	0.016
39DAP/reference	1.68729	0.011
41DAP/reference	1.87998	0.005
42DAP/reference	1.87293	0.007
43DAP/reference	2.13199	0.009
47DAP/reference	1.9123	0.008
52DAP/reference	1.62902	0.021
57DAP/reference	1.54759	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88645	0.169
17DAP/reference	1.29499	0.221
27DAP/reference	1.14206	0.575
39DAP/reference	1.19273	0.218
41DAP/reference	1.13116	0.961
42DAP/reference	1.23345	0.55
43DAP/reference	1.23028	0.973
47DAP/reference	1.47243	0.008
52DAP/reference	0.94512	0.529
57DAP/reference	2.01561	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.74662	0.966
26DAP/20DAP	0.78703	0.317
34DAP/26DAP	1.3684	0.819
51DAP/34DAP	1.03617	0.978
52DAP/51DAP	1.4021	0.377
53DAP/52DAP	1.06906	0.868
55DAP/53DAP	1.10991	0.748
57DAP/55DAP	1.13667	0.898
62DAP/57DAP	1.11566	1
68DAP/62DAP	0.99097	0.863
68DAP/14DAP	0.7423	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97984	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.04982	0.176
Mature Green Tomato/Ripe Tomato	0.67675
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	3.1487
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	1.28803
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	0.8654
4-3/M82	N/A	N/A
5-3/M82	1.04517
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.07714
9-3-2/M82	0.73773

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.5543	0.243
IL2-6/WTpooled	1.08811	0.788
IL7-5/WTpooled	0.72175	1
IL7-3/WTpooled	0.47668	0.298
IL12-4/WTpooled	0.82319	0.71
IL1-4/WTpooled	0.80119	0.562
WT/WTpooled	1.04665	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	1.23567

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0079	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.01045	1

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	2.38773

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	0.56608	0.933
Var 12h I row2-row1	1.08039	0.197
Var 12h NI row2-row1	0.96486	1
Var 36h I row2-row1	1.33375	1
Var 36h NI row2-row1	0.66828	1
Var 60h I row2-row1	0.71099	1
Var 60h NI row2-row1	0.59071	0.63
Time course 0hI-0hNI	1.02206	0.867
Time course 12hI-12hNI	0.96276	0.914
Time course 36hI-36hNI	0.89523	0.241
Time course 60hI-60hNI	0.79781	0.015

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)	1.13528	0.408
transgenic ySAMdc/azygous control (breaker)	0.58831	0.15
transgenic ySAMdc/azygous control (red)	0.91397	1

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	0.90996	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49122	0.172
Manapal/WT (break)	0.80912	1
Manapal/WT (red)	0.92355	0.728