Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01815	0.938
27DAP/17DAP	1.22843	0.804
39DAP/27DAP	1.05251	0.972
41DAP/39DAP	1.17756	0.356
42DAP/41DAP	0.89509	1
43DAP/42DAP	1.01757	0.937
47DAP/43DAP	1.09025	0.769
52DAP/47DAP	1.08099	0.937
57DAP/52DAP	1.06085	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79273	0.03
17DAP/reference	1.06711	0.248
27DAP/reference	1.22902	0.009
39DAP/reference	1.25267	0.017
41DAP/reference	1.13836	0.032
42DAP/reference	1.34359	0.001
43DAP/reference	1.32902	0.008
47DAP/reference	1.60935	0.001
52DAP/reference	1.19625	0.059
57DAP/reference	1.00335	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07226	0.241
27DAP/17DAP	1.00352	1
39DAP/27DAP	1.12007	0.324
41DAP/39DAP	1.03039	0.868
42DAP/41DAP	0.985	0.825
43DAP/42DAP	1.10523	0.122
47DAP/43DAP	1.0364	0.833
52DAP/47DAP	1.00069	0.987
57DAP/52DAP	0.93246	0.467
57DAP/7DAP	1.10829	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94307	0.445
17DAP/reference	1.31435	0.02
27DAP/reference	1.25457	0.015
39DAP/reference	1.97721	0.006
41DAP/reference	2.14859	0.009
42DAP/reference	3.17311	0.006
43DAP/reference	4.01355	0.006
47DAP/reference	3.26454	0.015
52DAP/reference	3.71735	0.007
57DAP/reference	3.43581	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82446	0.257
17DAP/reference	1.30688	0.033
27DAP/reference	1.29752	0.028
39DAP/reference	1.37992	0.012
41DAP/reference	1.55387	0.006
42DAP/reference	1.27533	0.079
43DAP/reference	1.03292	0.748
47DAP/reference	1.17875	0.164
52DAP/reference	1.39179	0.006
57DAP/reference	1.12302	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.31285	0.032
17DAP/reference	0.90735	0.275
27DAP/reference	1.1142	0.373
39DAP/reference	1.60054	0.02
41DAP/reference	0.9381	0.371
42DAP/reference	1.75372	0.011
43DAP/reference	1.62564	0.011
47DAP/reference	1.82189	0.006
52DAP/reference	2.27915	0.046
57DAP/reference	1.649	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1299	0.631
26DAP/20DAP	0.91879	1
34DAP/26DAP	0.98068	0.961
51DAP/34DAP	0.98311	0.863
52DAP/51DAP	0.8947	0.07
53DAP/52DAP	1.02748	0.882
55DAP/53DAP	0.9847	0.82
57DAP/55DAP	0.94045	0.748
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.9094	0.543
68DAP/14DAP	0.93816	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30881	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.41409	0.417
Mature Green Tomato/Ripe Tomato	0.69533	0.06
Immature Eggplant/Mature Eggplant	2.49102	0.05
Ripe Pepper/Ripe Tomato	0.84163	0.224
Mature Eggplant/Ripe Tomato	0.53247	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02217	1
1-1-2/M82	1.00207	1
12-2/M82	1.27801
12-4/M82	0.8938	1
1-3/M82	0.78066	0.378
2-1-1/M82	1.43805	0.422
2-1/M82	1.9785	0.345
2-6/M82	1.05567	0.594
3-2/M82	0.7618	0.379
4-1-1/M82	0.88662	1
4-1/M82	1.16659	0.853
4-3-2/M82	0.94214	1
4-3/M82	1.15606	1
5-3/M82	1.04218	1
6-2/M82	N/A	N/A
6-3/M82	1.02031	1
7-1/M82	0.90578
7-2/M82	0.89541	0.578
9-3-2/M82	0.85617	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89797	1
IL2-6/WTpooled	1.0375	0.788
IL7-5/WTpooled	0.94289
IL7-3/WTpooled	0.96235	1
IL12-4/WTpooled	1.01171	1
IL1-4/WTpooled	0.99975	1
WT/WTpooled	0.97884	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	1.11685	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07562	0.914
DC3000/delta hrp 6h	0.92395	0.95
DC3000/delta hrp 12h	1.14125	1
DC3000/delta hrp 24h	1.34281	0.044

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15598	0.441
DC3000 delta B/DC3000 delta AB	1.03248	0.601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03758	1
Exp 36h	N/A	N/A
Exp 60h	1.31526	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02364	1
Var 0h	1.06742	0.98
Var 12h I row2-row1	1.20592	0.348
Var 12h NI row2-row1	0.9394	0.713
Var 36h I row2-row1	0.96356	1
Var 36h NI row2-row1	1.16509	1
Var 60h I row2-row1	1.06969	0.562
Var 60h NI row2-row1	1.16986	0.904
Time course 0hI-0hNI	0.99498	1
Time course 12hI-12hNI	1.05576	0.554
Time course 36hI-36hNI	1.08991	0.128
Time course 60hI-60hNI	1.27622	0.013

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)	1.02205	0.798
transgenic ySAMdc/azygous control (breaker)	0.66683	0.134
transgenic ySAMdc/azygous control (red)	0.84717	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10115	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78535	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94143	1
Manapal/WT (break)	0.93256	1
Manapal/WT (red)	0.70203	0.315