Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14663	0.838
27DAP/17DAP	1.43525	0.632
39DAP/27DAP	0.83648	0.522
41DAP/39DAP	1.60512	0.232
42DAP/41DAP	0.97971	1
43DAP/42DAP	1.0887	1
47DAP/43DAP	1.15763	0.873
52DAP/47DAP	1.15125	0.804
57DAP/52DAP	0.93575	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73056
17DAP/reference	0.78173	0.567
27DAP/reference	0.41865
39DAP/reference	1.67905	0.903
41DAP/reference	N/A	N/A
42DAP/reference	N/A	N/A
43DAP/reference	N/A	N/A
47DAP/reference	0.45762	0.191
52DAP/reference	0.57604
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47741	0.179
27DAP/17DAP	0.90098	0.821
39DAP/27DAP	0.89073	0.488
41DAP/39DAP	1.20649	0.565
42DAP/41DAP	0.87257	0.412
43DAP/42DAP	0.91202	0.538
47DAP/43DAP	1.04354	0.973
52DAP/47DAP	1.12394	0.779
57DAP/52DAP	1.2973	0.232
57DAP/7DAP	1.36708	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1086	0.511
17DAP/reference	1.03013	1
27DAP/reference	1.02572	1
39DAP/reference	0.8488	0.049
41DAP/reference	0.81654	0.024
42DAP/reference	0.82685	0.027
43DAP/reference	0.99715	0.637
47DAP/reference	1.06855	0.571
52DAP/reference	0.97611	0.477
57DAP/reference	1.14626	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76655	0.032
17DAP/reference	0.7224	0.012
27DAP/reference	0.7382	0.173
39DAP/reference	0.79469	0.079
41DAP/reference	0.80285	0.231
42DAP/reference	2.65005
43DAP/reference	0.83542	0.212
47DAP/reference	0.77576
52DAP/reference	0.84085	0.131
57DAP/reference	0.74141	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03217	0.882
17DAP/reference	0.914	0.381
27DAP/reference	1.04947	0.749
39DAP/reference	1.08057	0.733
41DAP/reference	1.07508	0.174
42DAP/reference	0.93979	0.445
43DAP/reference	1.03339	0.639
47DAP/reference	0.84914	0.03
52DAP/reference	3.66003	0.176
57DAP/reference	1.26715	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10571	0.966
26DAP/20DAP	1.21751	0.524
34DAP/26DAP	1.21771	1
51DAP/34DAP	1.05799	0.856
52DAP/51DAP	0.70736	1
53DAP/52DAP	0.92052	0.684
55DAP/53DAP	0.74852	0.233
57DAP/55DAP	1.26961
62DAP/57DAP	1.00495	1
68DAP/62DAP	1.90349	0.032
68DAP/14DAP	2.07626	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12187	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82063	0.329
Mature Green Tomato/Ripe Tomato	0.82784	0.165
Immature Eggplant/Mature Eggplant	1.02692	1
Ripe Pepper/Ripe Tomato	1.94219
Mature Eggplant/Ripe Tomato	0.95514	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.82536	0.944
1-1-2/M82	0.84121	1
12-2/M82	0.91354
12-4/M82	1.04846	1
1-3/M82	0.57736	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.26055	0.345
2-6/M82	0.80654
3-2/M82	0.94301	1
4-1-1/M82	1.20491
4-1/M82	1.13921	1
4-3-2/M82	0.72196	0.487
4-3/M82	0.70437	0.292
5-3/M82	1.10743	1
6-2/M82	0.99443	1
6-3/M82	1.40926	1
7-1/M82	N/A	N/A
7-2/M82	0.90441	0.434
9-3-2/M82	0.88139	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83146	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.37092	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.2921
IL1-4/WTpooled	0.87399	0.699
WT/WTpooled	0.52616

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	4.52738

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00063	1
DC3000/delta hrp 6h	0.69612
DC3000/delta hrp 12h	0.81121	1
DC3000/delta hrp 24h	1.44723	0.356

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	0.95548	1
Exp 36h	1.51347	0.489
Exp 60h	1.34117	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0556	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.43316	0.506
Var 12h NI row2-row1	0.72118	1
Var 36h I row2-row1	0.49938	1
Var 36h NI row2-row1	1.98719	0.253
Var 60h I row2-row1	0.98919	1
Var 60h NI row2-row1	1.44435	0.904
Time course 0hI-0hNI	0.96639	0.845
Time course 12hI-12hNI	0.87475	0.592
Time course 36hI-36hNI	1.477	0.355
Time course 60hI-60hNI	2.8308	0.029

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)	0.92382	0.362
transgenic ySAMdc/azygous control (breaker)	1.07558	1
transgenic ySAMdc/azygous control (red)	1.03679	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	0.97044	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74026	1
Manapal/WT (break)	0.93818	1
Manapal/WT (red)	0.71524	0.188