Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27443	0.224
27DAP/17DAP	1.2157	0.829
39DAP/27DAP	1.21108	0.765
41DAP/39DAP	1.17681	0.758
42DAP/41DAP	1.25125	0.702
43DAP/42DAP	1.06818	1
47DAP/43DAP	1.09508	0.776
52DAP/47DAP	1.21177	0.818
57DAP/52DAP	1.2283	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02616	0.685
17DAP/reference	1.05613	0.068
27DAP/reference	1.00939	0.831
39DAP/reference	0.98819	0.779
41DAP/reference	1.00158	1
42DAP/reference	0.96447	0.163
43DAP/reference	1.06366	0.102
47DAP/reference	0.90563	0.042
52DAP/reference	0.96046	0.319
57DAP/reference	0.88918	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12273	0.708
27DAP/17DAP	0.93799	0.878
39DAP/27DAP	0.9078	0.563
41DAP/39DAP	0.88204	0.512
42DAP/41DAP	1.12343	0.327
43DAP/42DAP	0.95956	0.684
47DAP/43DAP	0.90439	0.192
52DAP/47DAP	0.98669	0.93
57DAP/52DAP	1.08574	0.703
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97435	0.495
17DAP/reference	1.11319	0.525
27DAP/reference	0.96573	0.348
39DAP/reference	0.91591	0.354
41DAP/reference	1.07376	0.56
42DAP/reference	1.0143	0.751
43DAP/reference	0.91475	0.321
47DAP/reference	1.02501	1
52DAP/reference	0.99221	0.621
57DAP/reference	0.99698	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0673	0.3
17DAP/reference	1.07643	0.127
27DAP/reference	1.02731	1
39DAP/reference	0.98354	0.469
41DAP/reference	0.9344	0.133
42DAP/reference	0.88684	0.023
43DAP/reference	1.07331	0.509
47DAP/reference	0.89461	0.023
52DAP/reference	1.11615	0.009
57DAP/reference	1.12591	0.091

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01444	0.804
17DAP/reference	1.18044	0.496
27DAP/reference	0.96825	0.594
39DAP/reference	1.06425	0.496
41DAP/reference	1.08419	0.889
42DAP/reference	0.99951	0.816
43DAP/reference	1.12916	0.418
47DAP/reference	1.07173	0.155
52DAP/reference	0.97117	0.718
57DAP/reference	0.92099	0.258

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04995	0.966
26DAP/20DAP	0.92204	1
34DAP/26DAP	1.10113	1
51DAP/34DAP	0.68766
52DAP/51DAP	0.93384	1
53DAP/52DAP	1.08146	0.594
55DAP/53DAP	1.07411	0.834
57DAP/55DAP	1.05555	0.975
62DAP/57DAP	1.20387	0.723
68DAP/62DAP	0.91177	0.722
68DAP/14DAP	0.94449	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13708	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82355	0.301
Mature Green Tomato/Ripe Tomato	0.9261	0.522
Immature Eggplant/Mature Eggplant	0.80341	0.125
Ripe Pepper/Ripe Tomato	0.80913	1
Mature Eggplant/Ripe Tomato	0.80402	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95281	0.883
1-1-2/M82	0.97673
12-2/M82	1.15422
12-4/M82	0.89197
1-3/M82	1.12996
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.02937	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.9607
4-3-2/M82	N/A	N/A
4-3/M82	1.29625
5-3/M82	1.01687	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.92997	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.38351
IL2-6/WTpooled	0.91833	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.81888	0.298
IL12-4/WTpooled	1.08272	0.839
IL1-4/WTpooled	1.01401
WT/WTpooled	0.94478	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	1.12102	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14798	0.774
DC3000/delta hrp 6h	0.95178	0.95
DC3000/delta hrp 12h	1.53827
DC3000/delta hrp 24h	0.83964	0.077

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68194	0.071
DC3000 delta B/DC3000 delta AB	0.81586	0.08

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04631	1
Exp 36h	0.86811	0.749
Exp 60h	0.87173	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.90297	1
Var 0h	0.48101	1
Var 12h I row2-row1	0.79688	0.418
Var 12h NI row2-row1	0.98491	1
Var 36h I row2-row1	1.07813	1
Var 36h NI row2-row1	1.50771	0.482
Var 60h I row2-row1	11.7324	1
Var 60h NI row2-row1	1.07875	0.904
Time course 0hI-0hNI	1.00639	1
Time course 12hI-12hNI	0.92076	0.173
Time course 36hI-36hNI	0.78919	0.023
Time course 60hI-60hNI	0.30383	0.005

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)	0.91318	0.234
transgenic ySAMdc/azygous control (breaker)	0.85883	0.15
transgenic ySAMdc/azygous control (red)	0.99021	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01467	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.48016	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.23088	0.14
Manapal/WT (break)	1.27492	0.14
Manapal/WT (red)	1.25853	0.413