Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.7.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16427	0.498
27DAP/17DAP	1.08144	0.927
39DAP/27DAP	1.52249	0.14
41DAP/39DAP	0.81929	0.254
42DAP/41DAP	1.19745	0.681
43DAP/42DAP	1.20065	0.923
47DAP/43DAP	0.87947	0.595
52DAP/47DAP	0.8434	0.562
57DAP/52DAP	0.97285	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94557	0.269
17DAP/reference	0.94759	0.368
27DAP/reference	0.89793	0.114
39DAP/reference	0.95282	0.446
41DAP/reference	0.93136	0.201
42DAP/reference	1.04574	0.338
43DAP/reference	1.02936	0.899
47DAP/reference	0.97215	0.258
52DAP/reference	1.01938	1
57DAP/reference	1.01788	0.783

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86403	0.323
27DAP/17DAP	1.07959	0.798
39DAP/27DAP	0.89667	0.26
41DAP/39DAP	1.22964	0.371
42DAP/41DAP	0.9587	0.721
43DAP/42DAP	1.22096	0.025
47DAP/43DAP	1.03084	0.939
52DAP/47DAP	1.11127	0.681
57DAP/52DAP	0.87557	0.308
57DAP/7DAP	0.82295	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71298	0.066
17DAP/reference	0.67261	0.011
27DAP/reference	0.64415	0.01
39DAP/reference	0.70097	0.011
41DAP/reference	0.70157	0.015
42DAP/reference	0.60773	0.01
43DAP/reference	0.54762	0.01
47DAP/reference	1.10934	1
52DAP/reference	0.55718	0.01
57DAP/reference	0.55696	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88967	0.119
17DAP/reference	0.90403	0.092
27DAP/reference	1.05684	0.535
39DAP/reference	1.02605	1
41DAP/reference	1.05637	0.862
42DAP/reference	1.09901	0.274
43DAP/reference	0.69872	0.008
47DAP/reference	1.00638	1
52DAP/reference	0.95821	0.259
57DAP/reference	0.83631	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75055	0.022
17DAP/reference	0.85594	0.255
27DAP/reference	0.80078	0.076
39DAP/reference	0.64894	0.006
41DAP/reference	0.77936	0.04
42DAP/reference	0.94771	0.552
43DAP/reference	0.90631	0.237
47DAP/reference	0.91685	0.207
52DAP/reference	0.65566	0.068
57DAP/reference	1.05844	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9826	1
26DAP/20DAP	1.01284	1
34DAP/26DAP	1.07763	1
51DAP/34DAP	1.31514	0.059
52DAP/51DAP	0.82917	0.151
53DAP/52DAP	1.07284	0.688
55DAP/53DAP	1.09968	0.584
57DAP/55DAP	1.39086	0.324
62DAP/57DAP	0.84022	0.28
68DAP/62DAP	1.77702	0.058
68DAP/14DAP	1.40629	0.04

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.23118	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.18704	0.058
Mature Green Tomato/Ripe Tomato	0.9001	0.347
Immature Eggplant/Mature Eggplant	3.0896	0.05
Ripe Pepper/Ripe Tomato	0.34029	0.293
Mature Eggplant/Ripe Tomato	1.01553	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99202	0.944
1-1-2/M82	1.0448	1
12-2/M82	1.02301	1
12-4/M82	1.15775	1
1-3/M82	1.03085	1
2-1-1/M82	1.02869	1
2-1/M82	1.07629	1
2-6/M82	1.03641	0.452
3-2/M82	1.04834	0.967
4-1-1/M82	1.09378	1
4-1/M82	1.53428	0.853
4-3-2/M82	1.21624	0.262
4-3/M82	1.04753	1
5-3/M82	0.95955	1
6-2/M82	1.05207	1
6-3/M82	0.99554	1
7-1/M82	0.99905	1
7-2/M82	0.98258	1
9-3-2/M82	1.22114	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85345	0.321
IL2-6/WTpooled	1.13107	0.659
IL7-5/WTpooled	0.72007	1
IL7-3/WTpooled	1.05921	1
IL12-4/WTpooled	0.8992	0.581
IL1-4/WTpooled	1.03133	1
WT/WTpooled	0.98536	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	1.21483	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13755	0.846
DC3000/delta hrp 6h	1.02499	1
DC3000/delta hrp 12h	1.11473	1
DC3000/delta hrp 24h	1.08486	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24182	0.045
DC3000 delta B/DC3000 delta AB	1.20267	0.282

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01445	1
Var 0h	0.9459	1
Var 12h I row2-row1	0.95401	0.77
Var 12h NI row2-row1	1.08095	1
Var 36h I row2-row1	1.37418	0.368
Var 36h NI row2-row1	0.90067	0.469
Var 60h I row2-row1	0.86328	0.832
Var 60h NI row2-row1	0.82795	0.483
Time course 0hI-0hNI	0.98313	0.955
Time course 12hI-12hNI	1.01033	0.888
Time course 36hI-36hNI	1.28576	0.011
Time course 60hI-60hNI	1.96785	0.008

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)	0.92447	0.309
transgenic ySAMdc/azygous control (breaker)	0.76032	0.139
transgenic ySAMdc/azygous control (red)	1.15164	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94101	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07157	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31427	0.14
Manapal/WT (break)	0.67177	0.333
Manapal/WT (red)	1.09559	1