Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.13.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.32479	0.498
27DAP/17DAP	1.20317	0.845
39DAP/27DAP	1.07545	1
41DAP/39DAP	1.02215	0.958
42DAP/41DAP	0.92712	1
43DAP/42DAP	1.35828	0.601
47DAP/43DAP	1.24738	0.555
52DAP/47DAP	0.94652	0.75
57DAP/52DAP	0.87366	0.879

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99862	0.787
17DAP/reference	1.13508	0.016
27DAP/reference	1.05217	0.15
39DAP/reference	1.07614	0.093
41DAP/reference	1.05067	0.365
42DAP/reference	0.93507	0.091
43DAP/reference	0.96503	0.519
47DAP/reference	0.95325	0.161
52DAP/reference	0.89222	0.172
57DAP/reference	0.8417	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9612	0.644
27DAP/17DAP	1.00561	1
39DAP/27DAP	1.08032	0.626
41DAP/39DAP	1.05071	0.79
42DAP/41DAP	0.8953	0.443
43DAP/42DAP	0.94399	0.522
47DAP/43DAP	0.95354	0.843
52DAP/47DAP	1.15122	0.524
57DAP/52DAP	1.07352	0.67
57DAP/7DAP	0.837	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18195	0.241
17DAP/reference	1.02661	1
27DAP/reference	0.95767	0.171
39DAP/reference	0.91794	0.23
41DAP/reference	1.0353	0.745
42DAP/reference	1.16783	0.308
43DAP/reference	1.01593	1
47DAP/reference	0.94092	0.293
52DAP/reference	1.03931	0.563
57DAP/reference	1.1823	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07426	0.3
17DAP/reference	1.07669	0.518
27DAP/reference	0.97038	0.438
39DAP/reference	0.91698	0.195
41DAP/reference	0.88101	0.112
42DAP/reference	0.93131	0.289
43DAP/reference	0.94202	0.394
47DAP/reference	1.05023	0.467
52DAP/reference	0.97181	0.38
57DAP/reference	1.17471	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00403	0.804
17DAP/reference	0.98976	0.751
27DAP/reference	0.91342	0.206
39DAP/reference	0.99338	0.755
41DAP/reference	0.8401	0.04
42DAP/reference	0.8486	0.22
43DAP/reference	0.86151	0.171
47DAP/reference	0.97008	0.494
52DAP/reference	0.87242	0.232
57DAP/reference	0.69814	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17195	0.966
26DAP/20DAP	0.94112	1
34DAP/26DAP	1.03813	1
51DAP/34DAP	0.81245	0.571
52DAP/51DAP	1.02077	0.939
53DAP/52DAP	1.0783	0.688
55DAP/53DAP	1.09104	0.755
57DAP/55DAP	0.98899	0.855
62DAP/57DAP	1.07286	0.445
68DAP/62DAP	0.92059	0.543
68DAP/14DAP	1.04792	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96031	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.98039	0.058
Mature Green Tomato/Ripe Tomato	0.38054	0.2
Immature Eggplant/Mature Eggplant	1.86383
Ripe Pepper/Ripe Tomato	0.10232	0.224
Mature Eggplant/Ripe Tomato	0.09784	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19888
1-1-2/M82	1.19412	0.977
12-2/M82	N/A	N/A
12-4/M82	0.74889	0.33
1-3/M82	0.97568
2-1-1/M82	1.02235	1
2-1/M82	N/A	N/A
2-6/M82	0.70076	0.467
3-2/M82	1.266
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.07637
4-3/M82	0.47005	0.578
5-3/M82	1.04566	1
6-2/M82	N/A	N/A
6-3/M82	1.21091	1
7-1/M82	0.88639
7-2/M82	1.26921
9-3-2/M82	0.96448

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09686	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.60255	1
IL12-4/WTpooled	0.97308	1
IL1-4/WTpooled	1.05486
WT/WTpooled	0.95423	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	1.36575	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.53076	0.692
DC3000/delta hrp 6h	0.77555	0.896
DC3000/delta hrp 12h	1.02365	1
DC3000/delta hrp 24h	0.46234

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	0.92383	1
Exp 36h	1.07762	1
Exp 60h	1.18316	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01901
Var 0h	0.87432	0.933
Var 12h I row2-row1	1.04709	0.613
Var 12h NI row2-row1	0.98805	1
Var 36h I row2-row1	1.35545	0.601
Var 36h NI row2-row1	0.9265	0.402
Var 60h I row2-row1	1.068
Var 60h NI row2-row1	0.95985	1
Time course 0hI-0hNI	1.13016	0.799
Time course 12hI-12hNI	1.42963	0.281
Time course 36hI-36hNI	0.96022	0.403
Time course 60hI-60hNI	0.70319	0.026

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)	1.18336	0.321
transgenic ySAMdc/azygous control (breaker)	1.12896	1
transgenic ySAMdc/azygous control (red)	1.16906	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99769	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.59537	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.52875	1
Manapal/WT (break)	0.73959	1
Manapal/WT (red)	0.80561	0.181