Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.20.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95783	0.743
27DAP/17DAP	1.07503	0.881
39DAP/27DAP	1.00452	0.769
41DAP/39DAP	1.24759	0.728
42DAP/41DAP	0.75753	0.774
43DAP/42DAP	1.03196	0.937
47DAP/43DAP	1.08738	0.965
52DAP/47DAP	0.9279	0.752
57DAP/52DAP	0.83236	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83309	0.03
17DAP/reference	0.99219	0.819
27DAP/reference	0.95821	0.428
39DAP/reference	0.90744	0.07
41DAP/reference	0.93207	0.154
42DAP/reference	0.83827	0.004
43DAP/reference	0.94272	0.377
47DAP/reference	0.89365	0.015
52DAP/reference	1.06637	0.524
57DAP/reference	0.98759	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4757	0.298
27DAP/17DAP	1.20961	0.514
39DAP/27DAP	0.79877	0.068
41DAP/39DAP	1.63943	0.774
42DAP/41DAP	0.75247	0.121
43DAP/42DAP	1.00386	0.928
47DAP/43DAP	1.05205	0.971
52DAP/47DAP	1.41721	0.428
57DAP/52DAP	0.78803	0.145
57DAP/7DAP	0.91577

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8595	0.1
17DAP/reference	1.04295	0.822
27DAP/reference	1.04424	0.804
39DAP/reference	0.92232	0.198
41DAP/reference	0.93782	0.326
42DAP/reference	1.08545	0.405
43DAP/reference	1.03528	0.603
47DAP/reference	0.94006	0.383
52DAP/reference	0.93977	0.278
57DAP/reference	0.99485	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85837	0.093
17DAP/reference	0.79864	0.008
27DAP/reference	0.81393	0.051
39DAP/reference	0.85774	0.056
41DAP/reference	0.81276	0.045
42DAP/reference	0.72596	0.012
43DAP/reference	0.66514	0.014
47DAP/reference	0.75704	0.013
52DAP/reference	0.90465	0.066
57DAP/reference	0.86419	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85518	0.077
17DAP/reference	0.89008	0.243
27DAP/reference	1.04341	0.834
39DAP/reference	0.9967	0.693
41DAP/reference	1.08921	0.637
42DAP/reference	1.03623	1
43DAP/reference	1.04447	0.779
47DAP/reference	0.87121	0.089
52DAP/reference	0.96899	0.704
57DAP/reference	0.82179	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2512	0.43
26DAP/20DAP	0.92292	1
34DAP/26DAP	1.3199	0.819
51DAP/34DAP	2.48988
52DAP/51DAP	0.88377	1
53DAP/52DAP	1.22814	0.623
55DAP/53DAP	1.04054	0.994
57DAP/55DAP	0.71121	0.234
62DAP/57DAP	1.23986	0.833
68DAP/62DAP	1.35024	0.188
68DAP/14DAP	1.14142	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73611	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.14383
Mature Green Tomato/Ripe Tomato	0.90493	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.09838	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.83303	1
1-3/M82	N/A	N/A
2-1-1/M82	0.78509
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.55851
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	1.09483	1
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.94927
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.39313	0.823
DC3000/delta hrp 6h	0.66779
DC3000/delta hrp 12h	1.18038	1
DC3000/delta hrp 24h	1.13226	0.383

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	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	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	5.03996
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	0.93812
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	1.22501

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)	0.78135	0.409
transgenic ySAMdc/azygous control (breaker)	1.43612	0.248
transgenic ySAMdc/azygous control (red)	0.84465	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96477	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09341	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31583	0.307
Manapal/WT (break)	0.69412	1
Manapal/WT (red)	1.44008	1