Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.4.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82692	0.364
27DAP/17DAP	0.87981	0.754
39DAP/27DAP	1.6796	0.262
41DAP/39DAP	1.2407	0.603
42DAP/41DAP	0.77782	0.774
43DAP/42DAP	0.99479	0.932
47DAP/43DAP	1.06441	0.889
52DAP/47DAP	0.61002	0.13
57DAP/52DAP	0.87621	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75621	0.024
17DAP/reference	1.051	0.508
27DAP/reference	0.94173	0.417
39DAP/reference	1.0393	0.734
41DAP/reference	0.87561	0.085
42DAP/reference	1.07616	0.467
43DAP/reference	1.04207	0.445
47DAP/reference	1.11938	0.963
52DAP/reference	0.99405	0.654
57DAP/reference	1.06459	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11325	0.899
27DAP/17DAP	1.00268	0.943
39DAP/27DAP	0.95607	0.712
41DAP/39DAP	1.00155	1
42DAP/41DAP	0.87389	0.486
43DAP/42DAP	1.0446	0.585
47DAP/43DAP	1.27318	0.939
52DAP/47DAP	1.16292	0.519
57DAP/52DAP	1.19416	0.798
57DAP/7DAP	1.38008	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18705	0.181
17DAP/reference	0.99344	0.599
27DAP/reference	1.18452	0.551
39DAP/reference	1.46468	0.077
41DAP/reference	1.19754	0.101
42DAP/reference	1.16095	0.059
43DAP/reference	1.17461	0.457
47DAP/reference	1.10909	0.241
52DAP/reference	1.1256	0.229
57DAP/reference	1.01508	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85422	0.1
17DAP/reference	0.82527	0.047
27DAP/reference	1.16131	1
39DAP/reference	0.98894	0.621
41DAP/reference	1.03711	1
42DAP/reference	0.8039	0.046
43DAP/reference	0.90428	0.361
47DAP/reference	0.85465	0.083
52DAP/reference	0.78199	0.051
57DAP/reference	0.98161	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12944	0.602
17DAP/reference	1.08966	0.585
27DAP/reference	0.98955	0.763
39DAP/reference	0.85261	0.05
41DAP/reference	1.17702	0.471
42DAP/reference	0.91336	0.445
43DAP/reference	1.26987	0.49
47DAP/reference	0.90073	0.278
52DAP/reference	0.9032	0.433
57DAP/reference	1.04627	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.65996	0.399
26DAP/20DAP	0.93037	1
34DAP/26DAP	1.00245	0.98
51DAP/34DAP	0.75279	0.36
52DAP/51DAP	0.86547	1
53DAP/52DAP	1.2955	0.489
55DAP/53DAP	1.13687	0.782
57DAP/55DAP	1.24553
62DAP/57DAP	1.14961	0.723
68DAP/62DAP	0.55108
68DAP/14DAP	1.8981	0.019

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30169	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	1.04053	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	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	N/A	N/A
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	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10394
IL12-4/WTpooled	0.75671
IL1-4/WTpooled	1.40231
WT/WTpooled	0.73801

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	0.90767	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99394	1
DC3000/delta hrp 6h	0.16743
DC3000/delta hrp 12h	0.93701	1
DC3000/delta hrp 24h	0.70346	0.252

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.46246
DC3000 delta B/DC3000 delta AB	0.57181	0.023

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	N/A	N/A
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)	1.00817	1
transgenic ySAMdc/azygous control (breaker)	2.01202	0.161
transgenic ySAMdc/azygous control (red)	1.3048	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00042	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99209	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.66286	0.172
Manapal/WT (break)	0.96885	1
Manapal/WT (red)	1.28783	0.413