Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.14.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83037	0.324
27DAP/17DAP	0.75861	0.326
39DAP/27DAP	1.4733	0.493
41DAP/39DAP	1.02325	0.795
42DAP/41DAP	0.76836	1
43DAP/42DAP	0.77856	0.589
47DAP/43DAP	0.94716	0.76
52DAP/47DAP	1.03785	0.88
57DAP/52DAP	1.22461	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11825	0.421
17DAP/reference	1.15521	0.08
27DAP/reference	1.04551	0.468
39DAP/reference	0.95993	0.527
41DAP/reference	1.11272	0.019
42DAP/reference	0.85783	0.033
43DAP/reference	0.98109	0.708
47DAP/reference	0.76845	0.002
52DAP/reference	0.75698	0.028
57DAP/reference	0.8466	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.56715	0.032
27DAP/17DAP	1.24728	0.413
39DAP/27DAP	0.96308	0.754
41DAP/39DAP	1.34278	0.112
42DAP/41DAP	0.93938	0.535
43DAP/42DAP	0.73118	0.024
47DAP/43DAP	1.35388	0.094
52DAP/47DAP	0.90256	0.591
57DAP/52DAP	0.67846	0.082
57DAP/7DAP	0.86062	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.45912	0.028
17DAP/reference	2.11482	0.007
27DAP/reference	1.59896	0.007
39DAP/reference	3.33091	0.005
41DAP/reference	2.38569	0.01
42DAP/reference	3.31841	0.006
43DAP/reference	4.13996	0.006
47DAP/reference	2.68947	0.235
52DAP/reference	4.01842	0.007
57DAP/reference	2.9654	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0632	0.719
17DAP/reference	1.06626	0.471
27DAP/reference	1.00937	1
39DAP/reference	0.99681	0.621
41DAP/reference	1.01996	1
42DAP/reference	1.10015	0.879
43DAP/reference	1.05	0.785
47DAP/reference	0.97095	0.434
52DAP/reference	0.98849	0.576
57DAP/reference	1.12286	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66971	0.053
17DAP/reference	1.13563	0.551
27DAP/reference	1.72202	0.03
39DAP/reference	2.14983	0.01
41DAP/reference	1.52908	0.031
42DAP/reference	1.75194	0.078
43DAP/reference	1.5718	0.314
47DAP/reference	0.95844	0.452
52DAP/reference	2.35827	0.054
57DAP/reference	1.22377	0.509

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77985	0.672
26DAP/20DAP	0.8589	1
34DAP/26DAP	0.82658	0.539
51DAP/34DAP	0.48613
52DAP/51DAP	1.12284	0.836
53DAP/52DAP	1.00037	0.978
55DAP/53DAP	0.7762	0.313
57DAP/55DAP	0.81449	0.351
62DAP/57DAP	0.97374	0.994
68DAP/62DAP	1.59501	0.214
68DAP/14DAP	0.75818	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.78946	0.055

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.54318	0.016
Immature Eggplant/Mature Eggplant	1.16792	0.057
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	4.44906	0.26

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	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
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	N/A	N/A
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	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12251	0.365
IL2-6/WTpooled	1.18556	0.788
IL7-5/WTpooled	1.2109	1
IL7-3/WTpooled	1.11437	1
IL12-4/WTpooled	1.59569
IL1-4/WTpooled	1.10034	0.426
WT/WTpooled	0.84623	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	1.04647	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07314	0.914
DC3000/delta hrp 6h	1.05799	1
DC3000/delta hrp 12h	0.80282	1
DC3000/delta hrp 24h	1.37279	0.054

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.35215	0.094
DC3000 delta B/DC3000 delta AB	0.90848	0.529

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24239	1
Exp 36h	1.13232	1
Exp 60h	1.0333	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04117	1
Var 0h	1.45364	0.374
Var 12h I row2-row1	1.31644	0.208
Var 12h NI row2-row1	1.04771	1
Var 36h I row2-row1	0.83517	1
Var 36h NI row2-row1	0.95681	0.743
Var 60h I row2-row1	0.6848	0.374
Var 60h NI row2-row1	0.98496	1
Time course 0hI-0hNI	1.03029	1
Time course 12hI-12hNI	1.41193	0.005
Time course 36hI-36hNI	1.27204	0.063
Time course 60hI-60hNI	2.49178	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)	1.46146	0.297
transgenic ySAMdc/azygous control (breaker)	1.00866	1
transgenic ySAMdc/azygous control (red)	1.18103	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07895	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68862	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08393	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A