Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.36394	0.017
27DAP/17DAP	1.4221	0.721
39DAP/27DAP	0.787	0.449
41DAP/39DAP	1.20015	0.403
42DAP/41DAP	1.08224	1
43DAP/42DAP	1.05654	1
47DAP/43DAP	0.90925	0.645
52DAP/47DAP	1.83108	0.239
57DAP/52DAP	0.92194	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15753	0.057
17DAP/reference	0.97658	0.664
27DAP/reference	0.97034	0.471
39DAP/reference	0.98976	0.797
41DAP/reference	0.93818	0.341
42DAP/reference	1.00428	1
43DAP/reference	1.0267	0.518
47DAP/reference	0.99097	0.568
52DAP/reference	0.93948	0.177
57DAP/reference	0.93989	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61435	0.033
27DAP/17DAP	1.00872	1
39DAP/27DAP	1.09503	0.575
41DAP/39DAP	1.02659	1
42DAP/41DAP	1.04158	0.893
43DAP/42DAP	1.09003	0.585
47DAP/43DAP	1.12068	0.744
52DAP/47DAP	0.98996	0.93
57DAP/52DAP	0.88674	0.467
57DAP/7DAP	0.54065	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92797	0.168
17DAP/reference	0.95327	0.035
27DAP/reference	0.88108	0.01
39DAP/reference	0.87466	0.011
41DAP/reference	0.92068	0.043
42DAP/reference	0.84915	0.012
43DAP/reference	0.87561	0.011
47DAP/reference	0.88378	0.03
52DAP/reference	0.86772	0.017
57DAP/reference	0.89282	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2651	0.038
17DAP/reference	1.06525	0.338
27DAP/reference	0.9898	0.619
39DAP/reference	0.84644	0.01
41DAP/reference	0.94481	0.237
42DAP/reference	0.92637	0.169
43DAP/reference	1.16887	0.044
47DAP/reference	0.92786	0.087
52DAP/reference	1.01596	0.938
57DAP/reference	1.09722	0.508

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97121	0.362
17DAP/reference	0.98629	0.668
27DAP/reference	0.85906	0.024
39DAP/reference	0.9037	0.076
41DAP/reference	0.90848	0.148
42DAP/reference	0.91314	0.025
43DAP/reference	0.88761	0.216
47DAP/reference	0.93115	0.296
52DAP/reference	0.85612	0.155
57DAP/reference	0.72252	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94537	1
26DAP/20DAP	0.90482
34DAP/26DAP	1.10387	1
51DAP/34DAP	0.95082	0.714
52DAP/51DAP	0.89533	0.045
53DAP/52DAP	1.12171	0.537
55DAP/53DAP	1.10938	0.162
57DAP/55DAP	1.01926	0.986
62DAP/57DAP	1.28207	0.569
68DAP/62DAP	1.09374	0.792
68DAP/14DAP	0.81839	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97756	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.12059	0.068
Mature Green Tomato/Ripe Tomato	1.07077	0.881
Immature Eggplant/Mature Eggplant	1.29013
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08807	1
1-1-2/M82	0.84407	1
12-2/M82	1.24	1
12-4/M82	0.935	1
1-3/M82	0.95236	0.378
2-1-1/M82	1.08306	0.764
2-1/M82	1.41653
2-6/M82	1.08485	0.695
3-2/M82	0.92132	1
4-1-1/M82	1.03641	1
4-1/M82	0.64325	1
4-3-2/M82	0.94214	1
4-3/M82	1.11287	1
5-3/M82	0.96956	1
6-2/M82	0.87553	0.481
6-3/M82	1.04692	1
7-1/M82	0.85444
7-2/M82	1.00401	1
9-3-2/M82	0.80862	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.91769	0.473
IL7-5/WTpooled	6.63392
IL7-3/WTpooled	1.10677
IL12-4/WTpooled	0.92658	0.71
IL1-4/WTpooled	0.94721
WT/WTpooled	0.95716	0.67

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	0.49298	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09934	0.846
DC3000/delta hrp 6h	1.53821	0.672
DC3000/delta hrp 12h	1.12865	1
DC3000/delta hrp 24h	0.96082	0.761

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.54412	0.03
DC3000 delta B/DC3000 delta AB	0.74009	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99873	1
Exp 36h	0.88131	0.749
Exp 60h	0.84608	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95771	1
Var 0h	1.19403	0.263
Var 12h I row2-row1	1.20837	0.443
Var 12h NI row2-row1	0.91089	0.627
Var 36h I row2-row1	0.78582	0.805
Var 36h NI row2-row1	0.90978	0.61
Var 60h I row2-row1	1.32036	1
Var 60h NI row2-row1	1.11436	0.904
Time course 0hI-0hNI	0.94353	0.582
Time course 12hI-12hNI	0.86278	0.259
Time course 36hI-36hNI	0.65698	0.028
Time course 60hI-60hNI	0.61979	0.015

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)	0.96727	0.662
transgenic ySAMdc/azygous control (breaker)	0.94605	0.49
transgenic ySAMdc/azygous control (red)	1.02011	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03779	0.142

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05744	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.64547	0.084
Manapal/WT (break)	1.07484	1
Manapal/WT (red)	0.99423	0.863