Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.17.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10354	0.709
27DAP/17DAP	1.35793	1
39DAP/27DAP	0.89317	0.641
41DAP/39DAP	2.22616	0.386
42DAP/41DAP	0.71763	0.774
43DAP/42DAP	1.20336	0.787
47DAP/43DAP	1.16681	0.769
52DAP/47DAP	1.1187	0.976
57DAP/52DAP	1.02143	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97362	0.601
17DAP/reference	1.06222	0.166
27DAP/reference	1.02953	0.934
39DAP/reference	1.05236	0.218
41DAP/reference	1.0313	0.287
42DAP/reference	1.03055	1
43DAP/reference	0.94968	0.429
47DAP/reference	0.98772	0.445
52DAP/reference	0.79223	0.128
57DAP/reference	0.87363	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98445	0.716
27DAP/17DAP	0.9573	0.446
39DAP/27DAP	1.04556	0.603
41DAP/39DAP	1.02806	0.763
42DAP/41DAP	0.91421	0.267
43DAP/42DAP	1.04997	0.176
47DAP/43DAP	1.02404	0.822
52DAP/47DAP	0.98979	0.93
57DAP/52DAP	0.98251	0.742
57DAP/7DAP	0.99047	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96964	0.495
17DAP/reference	1.0891	0.123
27DAP/reference	0.98821	0.614
39DAP/reference	1.18802	0.252
41DAP/reference	1.20018	0.375
42DAP/reference	1.12909	0.233
43DAP/reference	1.37222	0.188
47DAP/reference	0.90925	0.383
52DAP/reference	1.23467	0.121
57DAP/reference	1.32097	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98658	0.77
17DAP/reference	0.99425	0.728
27DAP/reference	0.84709	0.108
39DAP/reference	0.89608	0.144
41DAP/reference	0.92118	0.177
42DAP/reference	0.90985	0.189
43DAP/reference	1.04151	0.761
47DAP/reference	0.98153	0.512
52DAP/reference	0.98492	0.5
57DAP/reference	1.09401	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93587	0.29
17DAP/reference	1.1778	0.531
27DAP/reference	1.18548	0.081
39DAP/reference	1.10363	0.377
41DAP/reference	1.12092	0.425
42DAP/reference	1.18259	0.658
43DAP/reference	1.08232	0.7
47DAP/reference	0.93558	0.153
52DAP/reference	1.35147	0.237
57DAP/reference	0.78099	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05487	0.966
26DAP/20DAP	0.93802	1
34DAP/26DAP	0.97463	0.944
51DAP/34DAP	1.03815	0.692
52DAP/51DAP	0.96039	1
53DAP/52DAP	0.99039	0.951
55DAP/53DAP	0.91762	0.12
57DAP/55DAP	1.1218	0.975
62DAP/57DAP	0.98942	1
68DAP/62DAP	0.96101	0.787
68DAP/14DAP	1.10168	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92076	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51237	0.118
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.27603	0.174
Ripe Pepper/Ripe Tomato	1.04273	1
Mature Eggplant/Ripe Tomato	0.5223	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99675	1
1-1-2/M82	0.96712	0.754
12-2/M82	0.97431	0.955
12-4/M82	1.03044	1
1-3/M82	0.97688	0.441
2-1-1/M82	1.0349	0.689
2-1/M82	1.19243	1
2-6/M82	0.98343	1
3-2/M82	1.03986
4-1-1/M82	1.00318	1
4-1/M82	0.988
4-3-2/M82	1.11849
4-3/M82	1.00997	1
5-3/M82	0.95471	0.642
6-2/M82	1.06779	1
6-3/M82	1.01839	1
7-1/M82	1.04123	0.598
7-2/M82	0.94952	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05668	0.277
IL2-6/WTpooled	0.88818	1
IL7-5/WTpooled	1.15816	1
IL7-3/WTpooled	1.0214	1
IL12-4/WTpooled	1.08021	0.891
IL1-4/WTpooled	1.0972	1
WT/WTpooled	0.91368	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	1.16947	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91154	0.599
DC3000/delta hrp 6h	0.98112	0.95
DC3000/delta hrp 12h	0.98005	1
DC3000/delta hrp 24h	1.03478	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24795	0.042
DC3000 delta B/DC3000 delta AB	1.20875	0.2

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21062	1
Exp 36h	1.45564	1
Exp 60h	1.22714	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0049	1
Var 0h	0.94576	1
Var 12h I row2-row1	1.14973	0.235
Var 12h NI row2-row1	0.83455	0.494
Var 36h I row2-row1	0.8438	1
Var 36h NI row2-row1	1.08484	0.482
Var 60h I row2-row1	1.23502	0.562
Var 60h NI row2-row1	1.2414	0.904
Time course 0hI-0hNI	1.08679	0.833
Time course 12hI-12hNI	1.0422	0.703
Time course 36hI-36hNI	1.04772	0.248
Time course 60hI-60hNI	1.25933	0.015

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)	0.84589	0.309
transgenic ySAMdc/azygous control (breaker)	0.57546	0.142
transgenic ySAMdc/azygous control (red)	1.20753	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	0.47642	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83533	1
Manapal/WT (break)	0.95649	1
Manapal/WT (red)	0.6518	0.187