Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24505	0.997
27DAP/17DAP	1.45026	0.714
39DAP/27DAP	1.169	0.933
41DAP/39DAP	1.94421	0.303
42DAP/41DAP	1.11179	0.929
43DAP/42DAP	0.9411	0.877
47DAP/43DAP	1.51834	0.776
52DAP/47DAP	2.24333	0.346
57DAP/52DAP	1.0665	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08982	0.48
17DAP/reference	0.91128	0.097
27DAP/reference	1.11751	0.529
39DAP/reference	0.99345	0.901
41DAP/reference	1.15963	0.552
42DAP/reference	0.84871	0.012
43DAP/reference	0.86875	0.061
47DAP/reference	0.94875	0.279
52DAP/reference	1.31419	0.019
57DAP/reference	1.35852	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02781	1
27DAP/17DAP	1.34473	0.114
39DAP/27DAP	1.17774	0.611
41DAP/39DAP	1.11891	0.861
42DAP/41DAP	1.0648	1
43DAP/42DAP	0.74584	0.049
47DAP/43DAP	1.14416	0.681
52DAP/47DAP	1.04815	0.819
57DAP/52DAP	0.95259	0.603
57DAP/7DAP	1.75056	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78526	0.108
17DAP/reference	0.84619	0.056
27DAP/reference	1.21091	0.073
39DAP/reference	0.70163	0.013
41DAP/reference	0.79694	0.047
42DAP/reference	1.14272	0.233
43DAP/reference	0.83077	0.086
47DAP/reference	0.93464	0.504
52DAP/reference	1.07731	0.526
57DAP/reference	0.84881	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82226	0.1
17DAP/reference	0.72272	0.019
27DAP/reference	0.98466	0.537
39DAP/reference	1.20071	0.225
41DAP/reference	1.31733	0.318
42DAP/reference	1.1709	0.121
43DAP/reference	0.89241	0.336
47DAP/reference	0.94196	0.423
52DAP/reference	1.11483	0.106
57DAP/reference	0.81963	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84711	0.046
17DAP/reference	0.81164	0.109
27DAP/reference	0.8762	0.053
39DAP/reference	0.82892	0.031
41DAP/reference	1.0005	0.826
42DAP/reference	1.39188	0.037
43DAP/reference	0.75494	0.079
47DAP/reference	1.05275	1
52DAP/reference	0.9757	0.732
57DAP/reference	2.14028	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16633	0.966
26DAP/20DAP	0.88425	0.512
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.49757	0.504
52DAP/51DAP	0.86573	1
53DAP/52DAP	1.58414	0.608
55DAP/53DAP	1.1557	0.653
57DAP/55DAP	1.03097	0.97
62DAP/57DAP	0.71002	0.028
68DAP/62DAP	1.83081	0.142
68DAP/14DAP	2.18475	0.029

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.64582	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.24796	0.113
Mature Green Tomato/Ripe Tomato	0.47137	0.226
Immature Eggplant/Mature Eggplant	1.06521	0.439
Ripe Pepper/Ripe Tomato	1.0164	1
Mature Eggplant/Ripe Tomato	0.24218	1

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	0.81226
1-3/M82	N/A	N/A
2-1-1/M82	0.69997
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	1.33735	1
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	1.49955	0.365
IL2-6/WTpooled	0.8547	1
IL7-5/WTpooled	0.8212	1
IL7-3/WTpooled	1.21368	1
IL12-4/WTpooled	1.15623	0.367
IL1-4/WTpooled	1.13795	1
WT/WTpooled	0.99754	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	0.99614	1
DC3000/delta hrp 6h	0.98736	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.80515	0.182

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	1.35401	1
Exp 36h	0.96707	1
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	1.07926
Var 0h	1.13568	0.339
Var 12h I row2-row1	1.28463	0.202
Var 12h NI row2-row1	0.98676	0.488
Var 36h I row2-row1	0.92806	0.374
Var 36h NI row2-row1	0.7086	1
Var 60h I row2-row1	0.97033	0.952
Var 60h NI row2-row1	0.81526	0.904
Time course 0hI-0hNI	1.01716	1
Time course 12hI-12hNI	1.09917	0.663
Time course 36hI-36hNI	1.05744	0.799
Time course 60hI-60hNI	1.19403	0.022

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)	1.02205	0.921
transgenic ySAMdc/azygous control (breaker)	1.04657	1
transgenic ySAMdc/azygous control (red)	1.06592	0.92

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)	0.89526	1
Manapal/WT (break)	1.17077	0.14
Manapal/WT (red)	N/A	N/A