Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.1.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01939	1
27DAP/17DAP	0.92548	0.863
39DAP/27DAP	0.92282	0.573
41DAP/39DAP	1.18303	0.376
42DAP/41DAP	0.94216	1
43DAP/42DAP	1.08359	1
47DAP/43DAP	0.87347	0.576
52DAP/47DAP	1.00107	0.991
57DAP/52DAP	1.06409	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02877	0.544
17DAP/reference	1.05019	0.172
27DAP/reference	1.12146	0.041
39DAP/reference	1.07041	0.117
41DAP/reference	1.13836	0.027
42DAP/reference	0.99862	0.628
43DAP/reference	1.00142	0.924
47DAP/reference	1.0201	0.773
52DAP/reference	0.95518	0.393
57DAP/reference	0.93242	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99038	0.763
27DAP/17DAP	0.99306	0.919
39DAP/27DAP	0.99726	1
41DAP/39DAP	1.03716	0.719
42DAP/41DAP	0.95937	0.612
43DAP/42DAP	1.00424	0.788
47DAP/43DAP	0.98161	0.833
52DAP/47DAP	0.98459	0.907
57DAP/52DAP	0.93887	0.349
57DAP/7DAP	0.96916	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86825	0.071
17DAP/reference	0.8098	0.014
27DAP/reference	0.85036	0.033
39DAP/reference	0.89293	0.146
41DAP/reference	0.89665	0.116
42DAP/reference	0.81893	0.021
43DAP/reference	0.7066	0.016
47DAP/reference	0.84726	0.05
52DAP/reference	0.70285	0.015
57DAP/reference	0.76967	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03834	0.626
17DAP/reference	1.06645	0.11
27DAP/reference	0.96758	0.366
39DAP/reference	0.94385	0.208
41DAP/reference	0.9291	0.058
42DAP/reference	0.95795	0.135
43DAP/reference	1.04889	0.745
47DAP/reference	0.98558	0.5
52DAP/reference	1.01742	0.938
57DAP/reference	1.06232	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85641	0.098
17DAP/reference	0.94681	0.452
27DAP/reference	0.76102	0.038
39DAP/reference	0.73418	0.012
41DAP/reference	0.82533	0.055
42DAP/reference	0.77698	0.025
43DAP/reference	0.70271	0.027
47DAP/reference	0.9441	0.24
52DAP/reference	0.88796	0.262
57DAP/reference	0.78686	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04332	0.752
26DAP/20DAP	0.97723	1
34DAP/26DAP	1.14782	0.819
51DAP/34DAP	1.00354	1
52DAP/51DAP	0.98014	1
53DAP/52DAP	1.01267	1
55DAP/53DAP	0.95292	0.53
57DAP/55DAP	1.12971	0.826
62DAP/57DAP	0.90596	0.681
68DAP/62DAP	0.9742	0.885
68DAP/14DAP	0.91547	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01081	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.19264	0.063
Mature Green Tomato/Ripe Tomato	1.11373	0.881
Immature Eggplant/Mature Eggplant	1.09479	0.334
Ripe Pepper/Ripe Tomato	2.19647
Mature Eggplant/Ripe Tomato	1.93495	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92303	0.944
1-1-2/M82	1.10496	1
12-2/M82	1.00959	1
12-4/M82	0.98711	1
1-3/M82	0.91404	0.441
2-1-1/M82	1.02359	0.284
2-1/M82	1.07974
2-6/M82	0.98621	1
3-2/M82	0.90403	0.752
4-1-1/M82	1.01757	1
4-1/M82	1.05159
4-3-2/M82	1.06184	0.508
4-3/M82	0.98302	1
5-3/M82	0.98858	1
6-2/M82	1.0859	1
6-3/M82	1.05581	1
7-1/M82	0.94621	0.803
7-2/M82	1.12109	1
9-3-2/M82	0.97527	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01854	0.493
IL2-6/WTpooled	1.20322	0.788
IL7-5/WTpooled	0.90875	1
IL7-3/WTpooled	1.09321	0.362
IL12-4/WTpooled	1.02598	0.785
IL1-4/WTpooled	1.03418	1
WT/WTpooled	1.09553	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	1.0191	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98871	1
DC3000/delta hrp 6h	1.00751	0.95
DC3000/delta hrp 12h	0.94172	1
DC3000/delta hrp 24h	0.97826	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14389	0.046
DC3000 delta B/DC3000 delta AB	1.04986	0.498

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97866	1
Exp 36h	0.88954	0.623
Exp 60h	1.06461	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99717	1
Var 0h	0.9884	1
Var 12h I row2-row1	1.1185	0.348
Var 12h NI row2-row1	0.96256	0.82
Var 36h I row2-row1	1.11182	1
Var 36h NI row2-row1	0.89925	0.61
Var 60h I row2-row1	1.13897	0.562
Var 60h NI row2-row1	1.05559	0.904
Time course 0hI-0hNI	1.03889	0.852
Time course 12hI-12hNI	0.9903	0.978
Time course 36hI-36hNI	0.94708	0.373
Time course 60hI-60hNI	0.92616	0.081

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)	0.88335	0.314
transgenic ySAMdc/azygous control (breaker)	1.96762	0.178
transgenic ySAMdc/azygous control (red)	1.42813	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0031	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10467	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29329	1
Manapal/WT (break)	1.1646	1
Manapal/WT (red)	1.10983	1