Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.77748	0.264
27DAP/17DAP	1.28788	0.769
39DAP/27DAP	1.78254	0.114
41DAP/39DAP	0.6941	0.175
42DAP/41DAP	1.2293	0.916
43DAP/42DAP	1.19373	0.869
47DAP/43DAP	0.41673	0.053
52DAP/47DAP	1.00873	0.908
57DAP/52DAP	1.00133	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88447	0.101
17DAP/reference	1.00071	0.777
27DAP/reference	1.27577	0.049
39DAP/reference	1.10406	0.453
41DAP/reference	0.99937	1
42DAP/reference	2.20076	0.001
43DAP/reference	1.23831	0.047
47DAP/reference	1.48298	0.001
52DAP/reference	1.16137	0.065
57DAP/reference	1.44012	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.67426	0.036
27DAP/17DAP	0.76436	0.259
39DAP/27DAP	2.45537	0.051
41DAP/39DAP	0.83984	0.495
42DAP/41DAP	1.25011	0.916
43DAP/42DAP	1.25009	0.192
47DAP/43DAP	1.02145	0.973
52DAP/47DAP	1.39995	0.417
57DAP/52DAP	2.11097	0.063
57DAP/7DAP	2.61662	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27596	0.064
17DAP/reference	0.94208	0.22
27DAP/reference	1.18251	0.023
39DAP/reference	1.91025	0.006
41DAP/reference	1.26057	0.28
42DAP/reference	1.31364	0.132
43DAP/reference	2.42912	0.007
47DAP/reference	2.47392	0.014
52DAP/reference	1.72238	0.011
57DAP/reference	1.67788	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96523	0.655
17DAP/reference	0.71276	0.008
27DAP/reference	1.27277	0.23
39DAP/reference	1.49838	0.013
41DAP/reference	1.29156	0.096
42DAP/reference	1.18646	0.108
43DAP/reference	0.72922	0.039
47DAP/reference	1.13825	0.164
52DAP/reference	0.77376	0.078
57DAP/reference	0.82301	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95956	0.391
17DAP/reference	0.80736	0.139
27DAP/reference	1.17752	0.024
39DAP/reference	1.1402	0.087
41DAP/reference	0.97508	0.56
42DAP/reference	1.23523	0.226
43DAP/reference	1.42269	0.022
47DAP/reference	1.34666	0.01
52DAP/reference	1.6145	0.03
57DAP/reference	1.13839	0.279

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96699	1
26DAP/20DAP	1.49597	0.555
34DAP/26DAP	0.81938	0.256
51DAP/34DAP	1.60424	0.066
52DAP/51DAP	0.84193	1
53DAP/52DAP	1.20141	0.204
55DAP/53DAP	0.90771	0.163
57DAP/55DAP	0.80248	0.222
62DAP/57DAP	1.14954	0.767
68DAP/62DAP	0.89617	0.579
68DAP/14DAP	0.97088	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.74652	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.68635	0.189
Mature Green Tomato/Ripe Tomato	1.14219
Immature Eggplant/Mature Eggplant	1.67097	0.052
Ripe Pepper/Ripe Tomato	1.07151	1
Mature Eggplant/Ripe Tomato	0.94438	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.27014	0.877
1-1-2/M82	1.1856	1
12-2/M82	1.20565	0.61
12-4/M82	0.90046	1
1-3/M82	3.6749	0.248
2-1-1/M82	1.00304	1
2-1/M82	0.6522	0.325
2-6/M82	1.21777	0.695
3-2/M82	1.8574
4-1-1/M82	1.00981	1
4-1/M82	1.49258	1
4-3-2/M82	1.31851	0.508
4-3/M82	1.59808	1
5-3/M82	0.68888	0.49
6-2/M82	1.16939	1
6-3/M82	1.06265	1
7-1/M82	0.66635	0.476
7-2/M82	2.00887	0.385
9-3-2/M82	1.53774

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87749	1
IL2-6/WTpooled	1.27144
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16679	1
IL12-4/WTpooled	1.21825	0.525
IL1-4/WTpooled	1.05499	1
WT/WTpooled	1.0992	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	0.97744	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15649	0.656
DC3000/delta hrp 6h	1.22678	0.978
DC3000/delta hrp 12h	1.20481	1
DC3000/delta hrp 24h	1.22871	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.23932	0.441
DC3000 delta B/DC3000 delta AB	1.11395	0.453

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02805	1
Exp 36h	1.05378	1
Exp 60h	1.2201	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04122	1
Var 0h	0.9115	0.933
Var 12h I row2-row1	1.24049	0.544
Var 12h NI row2-row1	1.10533	1
Var 36h I row2-row1	1.28956	0.368
Var 36h NI row2-row1	1.09201	1
Var 60h I row2-row1	0.81853	0.292
Var 60h NI row2-row1	0.7679	0.408
Time course 0hI-0hNI	1.28952	0.486
Time course 12hI-12hNI	1.14827	0.313
Time course 36hI-36hNI	1.08719	0.218
Time course 60hI-60hNI	1.47561	0.008

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)	1.07057	0.654
transgenic ySAMdc/azygous control (breaker)	0.82836	0.251
transgenic ySAMdc/azygous control (red)	1.17843	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	2.47024	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.54751	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9463	1
Manapal/WT (break)	0.95797	1
Manapal/WT (red)	0.92864	0.728