Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.94275	0.061
27DAP/17DAP	1.58601	0.45
39DAP/27DAP	1.17049	0.56
41DAP/39DAP	0.62086	0.063
42DAP/41DAP	0.7047	0.774
43DAP/42DAP	0.92978	0.863
47DAP/43DAP	0.58851	0.074
52DAP/47DAP	1.2615	0.538
57DAP/52DAP	0.91305	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95251	0.455
17DAP/reference	0.98157	0.737
27DAP/reference	1.25232	0.125
39DAP/reference	1.23276	0.086
41DAP/reference	1.12186	0.093
42DAP/reference	0.96728	0.278
43DAP/reference	1.01561	1
47DAP/reference	1.00513	0.764
52DAP/reference	1.11146	0.128
57DAP/reference	1.29277	0.066

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.7755	0.036
27DAP/17DAP	1.40348	0.104
39DAP/27DAP	0.77305	0.034
41DAP/39DAP	1.14893	0.727
42DAP/41DAP	0.94676	0.649
43DAP/42DAP	0.66747	0.022
47DAP/43DAP	0.77325	0.056
52DAP/47DAP	1.18594	0.527
57DAP/52DAP	0.62341	0.058
57DAP/7DAP	0.80325	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80563	0.082
17DAP/reference	0.94355	0.22
27DAP/reference	1.20333	0.16
39DAP/reference	0.82628	0.146
41DAP/reference	0.80394	0.027
42DAP/reference	0.87565	0.136
43DAP/reference	0.86758	0.105
47DAP/reference	0.9017	0.383
52DAP/reference	0.92692	0.332
57DAP/reference	1.03422	0.746

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16533	0.373
17DAP/reference	1.10577	0.243
27DAP/reference	1.17819	0.133
39DAP/reference	1.05668	0.424
41DAP/reference	0.91832	0.183
42DAP/reference	1.40114	0.015
43DAP/reference	1.78349	0.016
47DAP/reference	1.40915	0.036
52DAP/reference	1.26604	0.018
57DAP/reference	1.11761	0.462

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92298	0.268
17DAP/reference	0.99836	0.825
27DAP/reference	1.10631	0.34
39DAP/reference	0.94995	0.36
41DAP/reference	0.91473	0.185
42DAP/reference	1.04421	0.671
43DAP/reference	0.92873	0.305
47DAP/reference	1.00791	0.754
52DAP/reference	0.80058	0.112
57DAP/reference	0.98467	0.583

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02364	1
26DAP/20DAP	1.19966	1
34DAP/26DAP	1.52603	1
51DAP/34DAP	1.1927	0.613
52DAP/51DAP	0.71222	1
53DAP/52DAP	0.92772	0.695
55DAP/53DAP	0.73079	0.13
57DAP/55DAP	0.71986	0.049
62DAP/57DAP	1.28095	0.115
68DAP/62DAP	1.15433	0.962
68DAP/14DAP	0.9899	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.22599	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	6.98738	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.20618
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.77295
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.17505
WT/WTpooled	N/A	N/A

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	1.56172	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03159	1
DC3000/delta hrp 6h	2.72965
DC3000/delta hrp 12h	1.13955	1
DC3000/delta hrp 24h	1.37553	0.029

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.06002
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18723	1
Exp 36h	1.87387	0.693
Exp 60h	1.89312	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05906	1
Var 0h	1.07285	1
Var 12h I row2-row1	1.1749	0.224
Var 12h NI row2-row1	0.93044	0.713
Var 36h I row2-row1	1.27362	0.601
Var 36h NI row2-row1	0.72097	0.482
Var 60h I row2-row1	0.77433	0.439
Var 60h NI row2-row1	0.61806	0.483
Time course 0hI-0hNI	0.96654	0.754
Time course 12hI-12hNI	1.1494	0.335
Time course 36hI-36hNI	1.75821	0.008
Time course 60hI-60hNI	1.9913	0.009

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)	1.47399	0.431
transgenic ySAMdc/azygous control (breaker)	1.00504	1
transgenic ySAMdc/azygous control (red)	1.65732	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04918	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80734	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53046	0.093
Manapal/WT (break)	1.05845	1
Manapal/WT (red)	1.30627	0.413