Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.4.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03302	0.977
27DAP/17DAP	1.36076	0.742
39DAP/27DAP	0.8071	0.449
41DAP/39DAP	1.24564	0.303
42DAP/41DAP	0.95873	1
43DAP/42DAP	1.0564	1
47DAP/43DAP	1.16952	0.438
52DAP/47DAP	0.89475	0.693
57DAP/52DAP	1.08734	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12563	0.241
17DAP/reference	1.07664	0.258
27DAP/reference	0.99316	0.847
39DAP/reference	0.9761	0.663
41DAP/reference	1.05473	0.587
42DAP/reference	1.0686	0.414
43DAP/reference	0.96542	0.48
47DAP/reference	1.01537	1
52DAP/reference	0.87801	0.053
57DAP/reference	0.89004	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14129	N/A
27DAP/17DAP	1.03029	1
39DAP/27DAP	0.99858	N/A
41DAP/39DAP	1.85645	N/A
42DAP/41DAP	1.17683	0.984
43DAP/42DAP	0.71826	N/A
47DAP/43DAP	0.75481	N/A
52DAP/47DAP	0.85658	0.446
57DAP/52DAP	0.27715	N/A
57DAP/7DAP	1.19872	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.80603	0.03
17DAP/reference	1.18863	0.147
27DAP/reference	0.94942	0.185
39DAP/reference	0.97802	0.552
41DAP/reference	0.9814	0.589
42DAP/reference	0.96068	0.393
43DAP/reference	1.09543	0.672
47DAP/reference	0.97861	0.671
52DAP/reference	1.16837	0.286
57DAP/reference	0.88585	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17476	0.156
17DAP/reference	1.17683	0.415
27DAP/reference	1.04433	1
39DAP/reference	0.91997	0.348
41DAP/reference	0.85913	0.007
42DAP/reference	0.96927	N/A
43DAP/reference	0.86076	0.02
47DAP/reference	1.03002	0.73
52DAP/reference	1.02231	0.498
57DAP/reference	1.02763	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23084	0.047
17DAP/reference	0.9756	0.579
27DAP/reference	0.97815	0.397
39DAP/reference	0.97496	0.504
41DAP/reference	0.91897	0.119
42DAP/reference	0.84092	0.019
43DAP/reference	0.92978	0.226
47DAP/reference	0.90319	0.027
52DAP/reference	0.76329	0.177
57DAP/reference	0.86032	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00677	0.966
26DAP/20DAP	0.66472	N/A
34DAP/26DAP	1.92177	1
51DAP/34DAP	1.30192	0.719
52DAP/51DAP	0.94885	N/A
53DAP/52DAP	1.01626	0.897
55DAP/53DAP	0.92695	0.592
57DAP/55DAP	N/A	N/A
62DAP/57DAP	0.96151	0.681
68DAP/62DAP	0.97146	0.863
68DAP/14DAP	1.01894	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44511	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97359	0.726
Mature Green Tomato/Ripe Tomato	0.81774	0.377
Immature Eggplant/Mature Eggplant	0.79742	0.063
Ripe Pepper/Ripe Tomato	1.74913	1
Mature Eggplant/Ripe Tomato	2.04881	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99397	1
1-1-2/M82	0.97491	0.958
12-2/M82	0.97144	0.955
12-4/M82	0.98892	1
1-3/M82	0.96249	0.378
2-1-1/M82	0.85169	0.465
2-1/M82	1.29797	1
2-6/M82	0.95962	1
3-2/M82	0.99969	1
4-1-1/M82	0.9154	0.962
4-1/M82	0.90802	0.665
4-3-2/M82	0.82803	0.487
4-3/M82	0.89362	0.611
5-3/M82	0.97806	1
6-2/M82	1.00697	1
6-3/M82	1.087	1
7-1/M82	1.0467	0.992
7-2/M82	0.9327	0.881
9-3-2/M82	0.84222	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.04092	N/A
IL2-6/WTpooled	0.7651	0.473
IL7-5/WTpooled	2.04759	0.75
IL7-3/WTpooled	1.22963	1
IL12-4/WTpooled	0.98361	1
IL1-4/WTpooled	1.0024	1
WT/WTpooled	0.97616	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03546	0.921
DC3000/delta hrp 6h	1.00287	0.95
DC3000/delta hrp 12h	0.85633	1
DC3000/delta hrp 24h	1.05088	N/A

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	1.0018	1
Exp 36h	1.06216	1
Exp 60h	1.0824	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
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	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.02502	0.571
transgenic ySAMdc/azygous control (breaker)	1.13421	0.162
transgenic ySAMdc/azygous control (red)	0.91697	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8789	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74904	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89739	1
Manapal/WT (break)	0.9836	1
Manapal/WT (red)	0.81188	0.229