Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.6.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58688	0.141
27DAP/17DAP	0.85034	0.683
39DAP/27DAP	0.8449	0.265
41DAP/39DAP	0.98883	0.946
42DAP/41DAP	1.06615	0.978
43DAP/42DAP	0.97187	0.91
47DAP/43DAP	1.17364	0.52
52DAP/47DAP	1.39558	0.637
57DAP/52DAP	0.96174	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86879	0.097
17DAP/reference	1.03495	0.492
27DAP/reference	1.03471	0.468
39DAP/reference	1.0201	0.628
41DAP/reference	1.05186	0.221
42DAP/reference	0.87551	0.02
43DAP/reference	1.0133	0.957
47DAP/reference	0.85542	0.014
52DAP/reference	0.83158	0.073
57DAP/reference	0.79466	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.7319	0.29
27DAP/17DAP	1.04921	1
39DAP/27DAP	1.15833	0.478
41DAP/39DAP	0.92683	0.781
42DAP/41DAP	0.97734	0.746
43DAP/42DAP	1.15102	0.513
47DAP/43DAP	1.17351	0.485
52DAP/47DAP	1.46537	0.301
57DAP/52DAP	1.43177	0.082
57DAP/7DAP	1.32837	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09294	1
17DAP/reference	0.83481	0.039
27DAP/reference	0.99762	0.614
39DAP/reference	1.00364	0.745
41DAP/reference	1.0813	0.791
42DAP/reference	0.93804	0.371
43DAP/reference	0.88077	0.126
47DAP/reference	0.8492	0.168
52DAP/reference	1.46508	0.197
57DAP/reference	0.97756	0.53

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0046	0.926
17DAP/reference	0.98779	0.642
27DAP/reference	0.89205	0.173
39DAP/reference	0.94663	0.381
41DAP/reference	0.84354	0.039
42DAP/reference	0.84701	0.055
43DAP/reference	1.02271	0.957
47DAP/reference	0.90481	0.047
52DAP/reference	1.03776	0.498
57DAP/reference	1.13529	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13955	0.207
17DAP/reference	0.88882	0.407
27DAP/reference	0.9339
39DAP/reference	1.02582	0.987
41DAP/reference	1.27246	0.333
42DAP/reference	1.00771	0.816
43DAP/reference	1.04468	0.738
47DAP/reference	0.94795	0.409
52DAP/reference	1.18581	0.252
57DAP/reference	0.69739	0.049

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96639	1
26DAP/20DAP	2.37027
34DAP/26DAP	0.92318	0.972
51DAP/34DAP	1.02651	0.988
52DAP/51DAP	0.66416
53DAP/52DAP	0.71625	0.15
55DAP/53DAP	1.36157	0.429
57DAP/55DAP	1.05445	1
62DAP/57DAP	0.99984	1
68DAP/62DAP	0.78011	0.118
68DAP/14DAP	0.88725	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.89931	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.52779	0.2
Immature Eggplant/Mature Eggplant	0.98813	1
Ripe Pepper/Ripe Tomato	0.57496	0.224
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	1.15648
12-2/M82	0.92073
12-4/M82	0.70517
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	1.02605
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	1.23912
6-2/M82	N/A	N/A
6-3/M82	1.04038
7-1/M82	0.63937
7-2/M82	1.04133
9-3-2/M82	1.05314

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87652	1
IL2-6/WTpooled	1.03388	0.419
IL7-5/WTpooled	0.93375	1
IL7-3/WTpooled	0.98465	1
IL12-4/WTpooled	0.89357	0.71
IL1-4/WTpooled	1.24517	0.426
WT/WTpooled	0.9453	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	1.11677	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.77821	0.941
DC3000/delta hrp 6h	0.31459
DC3000/delta hrp 12h	1.14115	1
DC3000/delta hrp 24h	0.97779	0.725

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	0.9817	1
Exp 36h	1.08888	1
Exp 60h	0.90123	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.13821	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.13656	0.473
Var 12h NI row2-row1	1.05398
Var 36h I row2-row1	0.85263	0.805
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	0.97401	0.881
Time course 12hI-12hNI	1.2089	0.097
Time course 36hI-36hNI	1.11145	0.05
Time course 60hI-60hNI	1.14899	0.096

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)	0.90428	0.213
transgenic ySAMdc/azygous control (breaker)	0.89715	0.49
transgenic ySAMdc/azygous control (red)	0.85213	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02299	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.54751	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96086	1
Manapal/WT (break)	1.02855	0.183
Manapal/WT (red)	0.74386	0.229