Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.4.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.54365	0.224
27DAP/17DAP	0.94703	0.941
39DAP/27DAP	0.98679	0.733
41DAP/39DAP	0.9793	0.828
42DAP/41DAP	1.05654	0.994
43DAP/42DAP	0.99974	0.925
47DAP/43DAP	1.14979	0.809
52DAP/47DAP	1.19599	0.811
57DAP/52DAP	0.95553	0.932

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89236	0.128
17DAP/reference	1.4266	0.457
27DAP/reference	0.93847	0.428
39DAP/reference	1.09572	0.27
41DAP/reference	1.3018	0.171
42DAP/reference	0.88025	0.151
43DAP/reference	0.69719	0.018
47DAP/reference	0.90808	0.009
52DAP/reference	1.01328	1
57DAP/reference	1.88521

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88754	0.311
27DAP/17DAP	1.06808	0.885
39DAP/27DAP	0.95422	0.754
41DAP/39DAP	1.16855	0.641
42DAP/41DAP	0.95828	0.721
43DAP/42DAP	1.00502	1
47DAP/43DAP	0.97736	0.861
52DAP/47DAP	0.97188	0.902
57DAP/52DAP	0.9665	0.73
57DAP/7DAP	0.7783	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25747	0.129
17DAP/reference	1.48494	0.008
27DAP/reference	1.47944	0.01
39DAP/reference	1.64359	0.01
41DAP/reference	1.50653	0.02
42DAP/reference	1.77765	0.007
43DAP/reference	2.06748	0.007
47DAP/reference	1.35561	0.458
52DAP/reference	1.64649	0.007
57DAP/reference	1.48915	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22405	0.605
17DAP/reference	1.0434	0.83
27DAP/reference	0.86509	0.257
39DAP/reference	0.93734	0.404
41DAP/reference	1.00277	1
42DAP/reference	0.96126	0.433
43DAP/reference	1.35715	0.386
47DAP/reference	1.15337	0.087
52DAP/reference	0.54581	0.078
57DAP/reference	1.04629	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28885	0.23
17DAP/reference	1.3147	0.376
27DAP/reference	1.8637	0.018
39DAP/reference	1.47867	0.022
41DAP/reference	1.52837	0.016
42DAP/reference	1.44512	0.018
43DAP/reference	1.30688	0.229
47DAP/reference	0.98813	0.593
52DAP/reference	1.48946	0.134
57DAP/reference	1.0415	0.704

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00779	1
26DAP/20DAP	0.82459	0.512
34DAP/26DAP	1.03902	1
51DAP/34DAP	1.23408	0.73
52DAP/51DAP	1.03895	0.662
53DAP/52DAP	1.06413	0.858
55DAP/53DAP	0.89862	0.336
57DAP/55DAP	0.73838	0.197
62DAP/57DAP	1.9543	0.158
68DAP/62DAP	0.65851
68DAP/14DAP	0.89192	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99793	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.99763	0.752
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.342

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05979	1
1-1-2/M82	0.91637	1
12-2/M82	N/A	N/A
12-4/M82	0.93173	1
1-3/M82	0.69303	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.83648	1
3-2/M82	1.05569
4-1-1/M82	0.68034	0.959
4-1/M82	1.02123	1
4-3-2/M82	0.81496	1
4-3/M82	0.91814	0.72
5-3/M82	0.90122	1
6-2/M82	0.65767	1
6-3/M82	0.99813	1
7-1/M82	1.01094
7-2/M82	0.81156	0.881
9-3-2/M82	1.08658

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68718	0.247
IL2-6/WTpooled	1.28641	0.531
IL7-5/WTpooled	1.51304	0.792
IL7-3/WTpooled	0.73169	0.294
IL12-4/WTpooled	0.88831	0.581
IL1-4/WTpooled	1.03544	1
WT/WTpooled	1.02049	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	1.04907	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04446	0.921
DC3000/delta hrp 6h	1.48929	1
DC3000/delta hrp 12h	1.02653	1
DC3000/delta hrp 24h	0.99664	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79776	0.691
DC3000 delta B/DC3000 delta AB	0.78331	0.044

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.02022	1
Exp 60h	1.13522	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00345	1
Var 0h	1.13407	0.782
Var 12h I row2-row1	1.44733	0.473
Var 12h NI row2-row1	0.99754	1
Var 36h I row2-row1	1.09	1
Var 36h NI row2-row1	0.84846	0.478
Var 60h I row2-row1	1.19452	1
Var 60h NI row2-row1	1.12944	0.904
Time course 0hI-0hNI	1.00423	1
Time course 12hI-12hNI	1.01852	0.868
Time course 36hI-36hNI	0.91729	0.312
Time course 60hI-60hNI	1.2362	0.029

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)	0.90008	0.299
transgenic ySAMdc/azygous control (breaker)	1.46405	0.178
transgenic ySAMdc/azygous control (red)	1.02981	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97863	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4441	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16623	0.105
Manapal/WT (break)	0.83616	0.333
Manapal/WT (red)	1.15506	0.413