Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13567	0.523
27DAP/17DAP	1.04112	1
39DAP/27DAP	0.9153	0.594
41DAP/39DAP	1.39056	0.422
42DAP/41DAP	1.27671	0.772
43DAP/42DAP	0.90858	0.799
47DAP/43DAP	0.88946	0.66
52DAP/47DAP	1.46826	0.446
57DAP/52DAP	1.13392	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01504	1
17DAP/reference	1.07887	0.031
27DAP/reference	1.04455	0.271
39DAP/reference	1.0631	0.224
41DAP/reference	1.14071	0.047
42DAP/reference	0.92693	0.072
43DAP/reference	0.94204	0.41
47DAP/reference	0.92357	0.065
52DAP/reference	0.92612	0.158
57DAP/reference	0.90971	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00803	0.975
27DAP/17DAP	1.03777	0.887
39DAP/27DAP	1.01068	0.824
41DAP/39DAP	1.045	0.817
42DAP/41DAP	0.93618	0.456
43DAP/42DAP	0.99453	0.991
47DAP/43DAP	0.9568	0.559
52DAP/47DAP	0.98811	0.919
57DAP/52DAP	0.96779	0.532
57DAP/7DAP	1.17751	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81868	0.066
17DAP/reference	0.86071	0.014
27DAP/reference	0.7754	0.01
39DAP/reference	0.84895	0.013
41DAP/reference	0.90648	0.052
42DAP/reference	0.813	0.015
43DAP/reference	0.85282	0.049
47DAP/reference	0.84438	0.066
52DAP/reference	0.84889	0.013
57DAP/reference	0.91447	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01748	0.732
17DAP/reference	0.98956	0.673
27DAP/reference	0.85633	0.134
39DAP/reference	0.88316	0.168
41DAP/reference	0.87075	0.083
42DAP/reference	0.87453	0.073
43DAP/reference	0.99203	0.761
47DAP/reference	0.93433	0.056
52DAP/reference	0.94073	0.055
57DAP/reference	1.04433	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85686	0.065
17DAP/reference	0.98186	0.668
27DAP/reference	0.86951	0.032
39DAP/reference	0.86024	0.04
41DAP/reference	0.85482	0.033
42DAP/reference	0.72978	0.016
43DAP/reference	0.77003	0.039
47DAP/reference	0.94946	0.357
52DAP/reference	0.77807	0.096
57DAP/reference	0.64594	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98139	1
26DAP/20DAP	0.92962	0.512
34DAP/26DAP	1.07183	0.819
51DAP/34DAP	0.96657	0.747
52DAP/51DAP	0.9852	1
53DAP/52DAP	1.10772	0.24
55DAP/53DAP	1.03369	0.771
57DAP/55DAP	1.09093	0.682
62DAP/57DAP	0.98089	0.994
68DAP/62DAP	0.95115	0.769
68DAP/14DAP	0.90988	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02702	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.5231	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.482
Mature Eggplant/Ripe Tomato	0.44051

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02609	1
1-1-2/M82	1.00119	1
12-2/M82	1.00074	1
12-4/M82	1.04004	1
1-3/M82	0.7764	0.378
2-1-1/M82	1.14159	0.764
2-1/M82	1.19749
2-6/M82	0.9589	1
3-2/M82	1.02275
4-1-1/M82	0.93877	1
4-1/M82	1.09052
4-3-2/M82	0.88369
4-3/M82	0.95	1
5-3/M82	1.0071
6-2/M82	1.03833	1
6-3/M82	0.86961	1
7-1/M82	0.99904	1
7-2/M82	1.04723	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.10449	0.365
IL2-6/WTpooled	1.30301	0.659
IL7-5/WTpooled	0.87382	1
IL7-3/WTpooled	0.906	0.293
IL12-4/WTpooled	1.32268	0.891
IL1-4/WTpooled	1.02271	1
WT/WTpooled	1.1322	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	0.94935

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01717	0.921
DC3000/delta hrp 6h	1.00323	0.95
DC3000/delta hrp 12h	1.06215	1
DC3000/delta hrp 24h	0.98061	0.897

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98204	1
DC3000 delta B/DC3000 delta AB	0.99789	1

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	1.00745	1
Var 0h	1.00046	1
Var 12h I row2-row1	1.09145	0.235
Var 12h NI row2-row1	0.95025	0.713
Var 36h I row2-row1	1.08085	1
Var 36h NI row2-row1	0.9328	0.361
Var 60h I row2-row1	1.19102	0.562
Var 60h NI row2-row1	1.11051	0.904
Time course 0hI-0hNI	1.1283	0.719
Time course 12hI-12hNI	1.0501	0.754
Time course 36hI-36hNI	0.96039	0.269
Time course 60hI-60hNI	1.03822	0.359

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)	0.87898	0.314
transgenic ySAMdc/azygous control (breaker)	1.11938	0.248
transgenic ySAMdc/azygous control (red)	1.11347	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9714	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05314	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97844	1
Manapal/WT (break)	0.88531	1
Manapal/WT (red)	0.83646	0.181