Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01083	0.823
27DAP/17DAP	1.15591	0.892
39DAP/27DAP	1.43951	0.299
41DAP/39DAP	2.24611	0.298
42DAP/41DAP	2.24821	0.023
43DAP/42DAP	1.71444	0.123
47DAP/43DAP	0.7959	0.402
52DAP/47DAP	0.81079	0.518
57DAP/52DAP	1.03271	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85977	0.053
17DAP/reference	1.03559	0.813
27DAP/reference	1.14812	0.156
39DAP/reference	1.01683	0.593
41DAP/reference	1.05912	0.393
42DAP/reference	1.36456	0.001
43DAP/reference	1.05015	0.705
47DAP/reference	1.39389	0.001
52DAP/reference	1.3113	0.008
57DAP/reference	1.04712	0.582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14412	0.093
27DAP/17DAP	0.99959	0.969
39DAP/27DAP	1.06455	0.646
41DAP/39DAP	0.85414	0.147
42DAP/41DAP	1.06329	0.719
43DAP/42DAP	1.37948	0.014
47DAP/43DAP	1.0781	0.765
52DAP/47DAP	1.17617	0.463
57DAP/52DAP	1.39735	0.086
57DAP/7DAP	1.04401	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14747	0.241
17DAP/reference	0.9731	0.518
27DAP/reference	1.06822	1
39DAP/reference	0.90861	0.264
41DAP/reference	0.94624	0.375
42DAP/reference	0.92347	0.169
43DAP/reference	0.83007	0.145
47DAP/reference	1.09813	0.561
52DAP/reference	0.85441	0.15
57DAP/reference	1.14058	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.113	0.605
17DAP/reference	1.00168	0.786
27DAP/reference	1.0296	0.988
39DAP/reference	1.02955	1
41DAP/reference	1.15163	0.502
42DAP/reference	0.9589	0.261
43DAP/reference	0.99941	0.801
47DAP/reference	0.90631	0.036
52DAP/reference	1.01708	0.559
57DAP/reference	1.1239	0.374

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01923	1
17DAP/reference	1.00135	0.839
27DAP/reference	1.13992	0.164
39DAP/reference	0.98108	0.591
41DAP/reference	1.13711	0.657
42DAP/reference	1.04358	0.818
43DAP/reference	1.11261	0.667
47DAP/reference	1.35867	0.006
52DAP/reference	1.602	0.172
57DAP/reference	1.25035	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19138	0.966
26DAP/20DAP	0.96719	1
34DAP/26DAP	1.66865	0.819
51DAP/34DAP	1.1735	0.261
52DAP/51DAP	1.47807	0.067
53DAP/52DAP	0.90615	0.715
55DAP/53DAP	1.26612	0.162
57DAP/55DAP	0.8072	0.294
62DAP/57DAP	1.29879	0.04
68DAP/62DAP	1.16408	0.653
68DAP/14DAP	1.71505	0.024

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33165	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.21369	0.062
Mature Green Tomato/Ripe Tomato	0.21093	0.017
Immature Eggplant/Mature Eggplant	0.41176	0.066
Ripe Pepper/Ripe Tomato	0.75196	0.293
Mature Eggplant/Ripe Tomato	0.45352	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.48662	0.551
1-1-2/M82	1.25776	1
12-2/M82	1.17344	0.448
12-4/M82	0.88044	0.275
1-3/M82	1.03995	1
2-1-1/M82	1.3157
2-1/M82	0.76841	0.345
2-6/M82	1.25484	0.505
3-2/M82	0.84654	0.428
4-1-1/M82	1.07578	1
4-1/M82	N/A	N/A
4-3-2/M82	1.04642
4-3/M82	1.20931	1
5-3/M82	0.9643	1
6-2/M82	0.93887	1
6-3/M82	0.97267	1
7-1/M82	0.64133
7-2/M82	1.24656	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8063	0.243
IL2-6/WTpooled	0.74789	0.358
IL7-5/WTpooled	1.06931	0.792
IL7-3/WTpooled	0.75327	0.418
IL12-4/WTpooled	0.97286	1
IL1-4/WTpooled	0.86386	0.699
WT/WTpooled	1.01569	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	0.96309	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93825	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09453	1
DC3000/delta hrp 24h	0.73919	0.039

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96359	0.765
DC3000 delta B/DC3000 delta AB	1.07036	0.524

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.74467	1
Exp 36h	N/A	N/A
Exp 60h	1.05302	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93126	1
Var 0h	0.68482	1
Var 12h I row2-row1	0.87921	0.338
Var 12h NI row2-row1	1.01791	1
Var 36h I row2-row1	0.93097	1
Var 36h NI row2-row1	0.67105	1
Var 60h I row2-row1	0.927	0.439
Var 60h NI row2-row1	0.92948	0.932
Time course 0hI-0hNI	1.01149	0.852
Time course 12hI-12hNI	0.97597	0.742
Time course 36hI-36hNI	0.93109	0.33
Time course 60hI-60hNI	0.65068	0.006

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)	1.07262	0.612
transgenic ySAMdc/azygous control (breaker)	1.8629	0.178
transgenic ySAMdc/azygous control (red)	0.97379	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97978	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97101	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.79947	0.096
Manapal/WT (break)	1.50464	1
Manapal/WT (red)	1.82818	0.137