Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09672	0.812
27DAP/17DAP	1.12533	0.89
39DAP/27DAP	0.86763	0.564
41DAP/39DAP	1.26784	0.387
42DAP/41DAP	1.27464	1
43DAP/42DAP	1.00449	0.925
47DAP/43DAP	0.98477	0.876
52DAP/47DAP	1.33295	0.601
57DAP/52DAP	1.06978	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02187	1
17DAP/reference	0.94936	0.278
27DAP/reference	0.91347	0.114
39DAP/reference	0.96829	0.541
41DAP/reference	0.95757	0.267
42DAP/reference	0.91694	0.016
43DAP/reference	0.98783	0.728
47DAP/reference	0.92306	0.019
52DAP/reference	0.83537	0.024
57DAP/reference	0.96635	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04193	0.593
27DAP/17DAP	0.97185	0.821
39DAP/27DAP	1.06402	0.519
41DAP/39DAP	1.05309	1
42DAP/41DAP	1.05536	0.478
43DAP/42DAP	1.00272	1
47DAP/43DAP	1.04801	0.822
52DAP/47DAP	1.01727	0.956
57DAP/52DAP	1.01733	0.971
57DAP/7DAP	0.98543	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91922	0.073
17DAP/reference	0.91037	0.013
27DAP/reference	0.91294	0.035
39DAP/reference	0.92632	0.073
41DAP/reference	0.89279	0.029
42DAP/reference	0.88346	0.011
43DAP/reference	0.93148	0.266
47DAP/reference	0.88426	0.168
52DAP/reference	0.848	0.083
57DAP/reference	0.90068	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03353	0.787
17DAP/reference	1.03694	0.69
27DAP/reference	0.93589	0.317
39DAP/reference	0.82344	0.031
41DAP/reference	0.83787	0.042
42DAP/reference	0.91352	0.098
43DAP/reference	1.00658	1
47DAP/reference	0.95059	0.145
52DAP/reference	0.94556	0.143
57DAP/reference	1.04117	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88067	0.039
17DAP/reference	0.98024	0.624
27DAP/reference	0.90341	0.038
39DAP/reference	0.98545	0.693
41DAP/reference	0.91066	0.024
42DAP/reference	0.87159	0.071
43DAP/reference	0.87053	0.049
47DAP/reference	0.91965	0.315
52DAP/reference	0.95364	0.444
57DAP/reference	0.78359	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00486	1
26DAP/20DAP	0.91522	1
34DAP/26DAP	0.94788	0.811
51DAP/34DAP	0.95209	0.674
52DAP/51DAP	1.13512	0.413
53DAP/52DAP	1.04731	0.901
55DAP/53DAP	1.04441	0.82
57DAP/55DAP	1.00568	0.891
62DAP/57DAP	1.02505	1
68DAP/62DAP	1.08272	0.8
68DAP/14DAP	0.99917	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20635	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.87702
Immature Eggplant/Mature Eggplant	1.20694	0.398
Ripe Pepper/Ripe Tomato	0.48022
Mature Eggplant/Ripe Tomato	0.82938	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94755	0.934
1-1-2/M82	1.02317	1
12-2/M82	1.09233	1
12-4/M82	0.94462	1
1-3/M82	0.97911	0.501
2-1-1/M82	1.11789	0.764
2-1/M82	1.1223	1
2-6/M82	0.97336	1
3-2/M82	0.94846	1
4-1-1/M82	1.03228	1
4-1/M82	0.83805	1
4-3-2/M82	0.91716	1
4-3/M82	0.96184	1
5-3/M82	1.02722	1
6-2/M82	0.9708	1
6-3/M82	0.98802	1
7-1/M82	0.98724	1
7-2/M82	1.13657	1
9-3-2/M82	0.88928	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74831	0.243
IL2-6/WTpooled	1.01968	1
IL7-5/WTpooled	0.92657	1
IL7-3/WTpooled	0.8945	0.31
IL12-4/WTpooled	1.03565	0.646
IL1-4/WTpooled	0.94202	0.699
WT/WTpooled	0.9873	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	1.25453	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9912	1
DC3000/delta hrp 6h	1.80622
DC3000/delta hrp 12h	1.03715	1
DC3000/delta hrp 24h	0.96145	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10078	0.208
DC3000 delta B/DC3000 delta AB	0.97431	0.826

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9039	1
Exp 36h	1.07001	1
Exp 60h	1.42944	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96363	1
Var 0h	0.31897	0.198
Var 12h I row2-row1	1.30997	0.406
Var 12h NI row2-row1	1.02952	1
Var 36h I row2-row1	1.00455	1
Var 36h NI row2-row1	0.9793	0.852
Var 60h I row2-row1	1.36673	1
Var 60h NI row2-row1	1.09673	0.904
Time course 0hI-0hNI	1.10846	0.799
Time course 12hI-12hNI	1.07892	0.687
Time course 36hI-36hNI	0.99842	0.811
Time course 60hI-60hNI	1.13595	0.137

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)	1.00735	1
transgenic ySAMdc/azygous control (breaker)	1.05125	1
transgenic ySAMdc/azygous control (red)	1.12511	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0177	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04852	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90353	1
Manapal/WT (break)	1.12557	1
Manapal/WT (red)	1.03596	1