Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01282	0.801
27DAP/17DAP	1.02225	1
39DAP/27DAP	1.16278	0.782
41DAP/39DAP	0.94646	0.825
42DAP/41DAP	0.80607	1
43DAP/42DAP	0.91686	0.776
47DAP/43DAP	1.12311	0.659
52DAP/47DAP	1.00953	0.758
57DAP/52DAP	1.25722	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9064	0.089
17DAP/reference	1.03469	0.675
27DAP/reference	0.93343	0.124
39DAP/reference	0.99451	0.901
41DAP/reference	0.9851	0.667
42DAP/reference	0.9258	0.008
43DAP/reference	1.04247	0.596
47DAP/reference	0.98733	0.535
52DAP/reference	0.99206	0.636
57DAP/reference	0.96312	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.57753	0.736
27DAP/17DAP	1.31326	0.938
39DAP/27DAP	0.25864
41DAP/39DAP	0.52614
42DAP/41DAP	1.25005	0.526
43DAP/42DAP	0.03988
47DAP/43DAP	1.25609
52DAP/47DAP	1.22035	0.826
57DAP/52DAP	1.68909	0.929
57DAP/7DAP	0.67688	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9408	0.613
17DAP/reference	N/A	N/A
27DAP/reference	1.28594	0.551
39DAP/reference	1.31826	0.036
41DAP/reference	1.02585	1
42DAP/reference	1.26661	0.534
43DAP/reference	1.24063	1
47DAP/reference	0.89791	0.101
52DAP/reference	1.06253	0.636
57DAP/reference	1.1818	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87445	0.083
17DAP/reference	0.88232	0.124
27DAP/reference	0.90168	0.155
39DAP/reference	0.98017	0.497
41DAP/reference	0.8971	0.118
42DAP/reference	0.9042	0.212
43DAP/reference	0.96295	0.507
47DAP/reference	0.93417	0.178
52DAP/reference	1.02588	0.988
57DAP/reference	0.87024	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22549	0.616
17DAP/reference	1.0238	0.944
27DAP/reference	1.24718
39DAP/reference	0.97574	0.819
41DAP/reference	1.25408	0.369
42DAP/reference	1.04498	0.716
43DAP/reference	1.15126	0.418
47DAP/reference	1.23875	0.073
52DAP/reference	0.76626	0.166
57DAP/reference	1.04976	0.57

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06405	0.966
26DAP/20DAP	0.67048
34DAP/26DAP	0.35857
51DAP/34DAP	1.99533	0.627
52DAP/51DAP	1.06008	0.808
53DAP/52DAP	1.13118	0.978
55DAP/53DAP	0.82508	0.604
57DAP/55DAP	0.78829	0.49
62DAP/57DAP	1.10484	0.393
68DAP/62DAP	1.24718	0.336
68DAP/14DAP	2.36482	0.249

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.32484	0.127
Mature Green Tomato/Ripe Tomato	1.59789	0.016
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.98711	0.373

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	1.11263
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	N/A	N/A
4-3/M82	0.90824
5-3/M82	1.15362
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.30005
7-2/M82	N/A	N/A
9-3-2/M82	0.94231

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12265	0.277
IL2-6/WTpooled	1.29482	0.584
IL7-5/WTpooled	1.07161	1
IL7-3/WTpooled	1.68263	0.362
IL12-4/WTpooled	1.35402	0.538
IL1-4/WTpooled	0.76905	0.699
WT/WTpooled	1.03769	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	1.00907	1
DC3000/delta hrp 6h	1.05712	1
DC3000/delta hrp 12h	1.04046	1
DC3000/delta hrp 24h	2.40084	0.438

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	0.79295	1
Exp 36h	0.65702	0.406
Exp 60h	0.69892	0.386

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	1.06127	0.782
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)	1.21569	0.326
transgenic ySAMdc/azygous control (breaker)	1.466	0.172
transgenic ySAMdc/azygous control (red)	1.44956	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97318	0.353

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.60154	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.85197	0.083
Manapal/WT (break)	1.81313	0.381
Manapal/WT (red)	0.93562	0.728