Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39609	0.211
27DAP/17DAP	0.99933	1
39DAP/27DAP	1.54552	0.486
41DAP/39DAP	1.0884	0.904
42DAP/41DAP	1.31607	0.691
43DAP/42DAP	1.19674	0.892
47DAP/43DAP	1.05113	0.884
52DAP/47DAP	0.99534	0.934
57DAP/52DAP	0.86731	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86759	0.08
17DAP/reference	1.05632	0.442
27DAP/reference	0.93193	0.208
39DAP/reference	0.91117	0.121
41DAP/reference	0.99327	0.814
42DAP/reference	0.94814	0.091
43DAP/reference	0.92636	0.084
47DAP/reference	0.9196	0.106
52DAP/reference	0.74764	0.013
57DAP/reference	0.76804	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1681	0.619
27DAP/17DAP	1.06137	0.905
39DAP/27DAP	1.18212	0.514
41DAP/39DAP	1.18397	0.69
42DAP/41DAP	1.05079	1
43DAP/42DAP	0.95345	0.709
47DAP/43DAP	1.17591	0.765
52DAP/47DAP	1.14925	0.73
57DAP/52DAP	1.67531	0.253
57DAP/7DAP	0.87261

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15878	0.691
17DAP/reference	1.50852	0.134
27DAP/reference	1.39387	0.009
39DAP/reference	1.46937	0.016
41DAP/reference	1.35616	0.159
42DAP/reference	1.29011	0.132
43DAP/reference	1.57694	0.013
47DAP/reference	0.98901	0.671
52DAP/reference	1.31133	0.092
57DAP/reference	1.29678	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01069	0.951
17DAP/reference	0.9382	0.389
27DAP/reference	0.90871	0.22
39DAP/reference	0.75433	0.012
41DAP/reference	0.75259	0.04
42DAP/reference	0.76547	0.016
43DAP/reference	0.89958	0.257
47DAP/reference	0.86638	0.044
52DAP/reference	0.93396	0.171
57DAP/reference	1.03813	0.868

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19939	0.19
17DAP/reference	1.17381	0.602
27DAP/reference	1.60062	0.036
39DAP/reference	1.59504	0.03
41DAP/reference	1.26697	0.265
42DAP/reference	1.34977	0.265
43DAP/reference	0.99948	0.639
47DAP/reference	0.82303	0.03
52DAP/reference	1.3608	0.306
57DAP/reference	0.75945	0.161

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08838	0.966
26DAP/20DAP	1.04248	1
34DAP/26DAP	0.90515	0.642
51DAP/34DAP	1.28212
52DAP/51DAP	1.78765
53DAP/52DAP	1.35782	0.537
55DAP/53DAP	1.31797	0.733
57DAP/55DAP	0.85567	0.282
62DAP/57DAP	1.00983	1
68DAP/62DAP	0.93935	0.747
68DAP/14DAP	0.71851	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11441	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10401	0.417
Mature Green Tomato/Ripe Tomato	1.0241	1
Immature Eggplant/Mature Eggplant	0.81466	0.063
Ripe Pepper/Ripe Tomato	1.0729	1
Mature Eggplant/Ripe Tomato	1.73443	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.58801
1-1-2/M82	1.38423	0.977
12-2/M82	N/A	N/A
12-4/M82	1.00333	1
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	1.06282
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.61014
4-3/M82	0.98606
5-3/M82	0.88119	0.447
6-2/M82	N/A	N/A
6-3/M82	1.22252	1
7-1/M82	0.89279
7-2/M82	1.00449
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.72991
IL2-6/WTpooled	0.8294	0.473
IL7-5/WTpooled	1.08265
IL7-3/WTpooled	1.17574	1
IL12-4/WTpooled	1.26278	0.624
IL1-4/WTpooled	1.45608	1
WT/WTpooled	1.03843	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	1.15935	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98964	1
DC3000/delta hrp 6h	1.07657	1
DC3000/delta hrp 12h	0.92554	1
DC3000/delta hrp 24h	1.23166	0.09

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	0.97471	1
Exp 36h	1.04486	1
Exp 60h	0.82551	0.586

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	0.96971	1
Var 12h I row2-row1	1.30937	0.544
Var 12h NI row2-row1	1.02774
Var 36h I row2-row1	0.86676	0.805
Var 36h NI row2-row1	1.03648	1
Var 60h I row2-row1	0.72316	0.287
Var 60h NI row2-row1	1.00194	1
Time course 0hI-0hNI	0.79812	0.852
Time course 12hI-12hNI	0.98058	0.827
Time course 36hI-36hNI	1.59343	0.19
Time course 60hI-60hNI	5.11696	0.033

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)	0.70452	0.229
transgenic ySAMdc/azygous control (breaker)	1.21846	0.248
transgenic ySAMdc/azygous control (red)	0.89061	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	1.3209	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06396	0.307
Manapal/WT (break)	0.74498	0.299
Manapal/WT (red)	0.70012	0.315