Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.14.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85907	0.389
27DAP/17DAP	1.35056	0.836
39DAP/27DAP	1.21449	0.919
41DAP/39DAP	1.22556	0.642
42DAP/41DAP	1.02388	1
43DAP/42DAP	0.91209	0.761
47DAP/43DAP	0.8732	0.576
52DAP/47DAP	1.36459	0.418
57DAP/52DAP	0.78847	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92488	0.162
17DAP/reference	0.93599	0.224
27DAP/reference	0.93435	0.137
39DAP/reference	1.00625	0.857
41DAP/reference	0.96746	0.542
42DAP/reference	0.85146	0.014
43DAP/reference	0.94311	0.429
47DAP/reference	0.91514	0.018
52DAP/reference	0.91336	0.283
57DAP/reference	0.90467	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86434	0.164
27DAP/17DAP	0.95048	0.724
39DAP/27DAP	1.05656	0.615
41DAP/39DAP	1.12248	0.719
42DAP/41DAP	0.98347	0.787
43DAP/42DAP	0.99449	1
47DAP/43DAP	1.02238	0.92
52DAP/47DAP	1.05281	0.8
57DAP/52DAP	1.04799	0.695
57DAP/7DAP	1.30695	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98131	0.55
17DAP/reference	1.06002	0.134
27DAP/reference	0.91118	0.082
39DAP/reference	1.08508	0.013
41DAP/reference	1.00304	0.811
42DAP/reference	1.10314	0.037
43DAP/reference	1.12035	0.226
47DAP/reference	1.15769	0.073
52DAP/reference	1.04911	0.599
57DAP/reference	1.11192	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9547	0.503
17DAP/reference	0.89735	0.129
27DAP/reference	0.78862	0.045
39DAP/reference	0.85785	0.144
41DAP/reference	0.91337	0.218
42DAP/reference	0.9657	0.482
43DAP/reference	0.93367	0.32
47DAP/reference	0.99477	0.695
52DAP/reference	1.01565	0.988
57DAP/reference	1.05527	0.296

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9758	0.566
17DAP/reference	0.98658	0.739
27DAP/reference	1.10837	0.059
39DAP/reference	1.03515	0.578
41DAP/reference	1.00148	1
42DAP/reference	0.92737	0.22
43DAP/reference	0.82546	0.092
47DAP/reference	0.97967	0.538
52DAP/reference	0.94614	0.551
57DAP/reference	0.93646	0.315

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03659	0.966
26DAP/20DAP	0.956	1
34DAP/26DAP	1.01397	1
51DAP/34DAP	0.95063	0.667
52DAP/51DAP	0.91423
53DAP/52DAP	0.98492	0.902
55DAP/53DAP	0.95037	0.709
57DAP/55DAP	1.0836	0.805
62DAP/57DAP	1.15167	0.723
68DAP/62DAP	0.94798	0.747
68DAP/14DAP	0.69077	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13699	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.50568	0.317
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.40657
Mature Eggplant/Ripe Tomato	0.03367	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97853	0.961
1-1-2/M82	0.75385	1
12-2/M82	1.17057	1
12-4/M82	1.0327	1
1-3/M82	0.75469	0.378
2-1-1/M82	1.08381	0.375
2-1/M82	1.49328
2-6/M82	1.11469	0.594
3-2/M82	0.8351	0.752
4-1-1/M82	1.18812	0.666
4-1/M82	0.8953	1
4-3-2/M82	0.80856	0.698
4-3/M82	0.9109	1
5-3/M82	0.88658	0.395
6-2/M82	0.99266	1
6-3/M82	0.99276	1
7-1/M82	0.92696	0.803
7-2/M82	1.04949	1
9-3-2/M82	1.01813	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
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	1.50733	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01351	1
DC3000/delta hrp 6h	0.7
DC3000/delta hrp 12h	1.02689	1
DC3000/delta hrp 24h	0.98947	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91522	0.597
DC3000 delta B/DC3000 delta AB	1.00537	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.34596	0.254
Exp 36h	2.12941	0.489
Exp 60h	2.31194	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99273	1
Var 0h	1.205	1
Var 12h I row2-row1	1.03076	0.795
Var 12h NI row2-row1	1.05684	1
Var 36h I row2-row1	1.32264	1
Var 36h NI row2-row1	0.76663	0.61
Var 60h I row2-row1	0.79435	0.582
Var 60h NI row2-row1	1.15839	0.904
Time course 0hI-0hNI	1.18439	0.719
Time course 12hI-12hNI	1.09722	0.633
Time course 36hI-36hNI	1.22181	0.28
Time course 60hI-60hNI	1.47599	0.012

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)	1.06628	0.612
transgenic ySAMdc/azygous control (breaker)	0.49738	0.173
transgenic ySAMdc/azygous control (red)	1.2441	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01283	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80611	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)	0.78308	1
Manapal/WT (red)	0.68445	0.188