TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv3092c/-:

update plot	correlation	link to info on gene
Rv3076/-	(cc=0.4927)	info on Rv3076/-
Rv3198A/-	(cc=0.4866)	info on Rv3198A/-
Rv2453c/mobA	(cc=0.4619)	info on Rv2453c/mobA
Rv2579/dhaA	(cc=0.4456)	info on Rv2579/dhaA
Rv1040c/PE8	(cc=0.4283)	info on Rv1040c/PE8
Rv0566c/-	(cc=0.4271)	info on Rv0566c/-
Rv2300c/-	(cc=0.4259)	info on Rv2300c/-
Rv2770c/PPE44	(cc=0.4236)	info on Rv2770c/PPE44
Rv2879c/-	(cc=0.4148)	info on Rv2879c/-
Rv1162/narH	(cc=0.4103)	info on Rv1162/narH

Correlation of Rv3092c/- with Rv2300c/-

Normalized LFCs for Rv3092c/-:
(description and provenance of datasets)

	Rv3092c/-	Rv2300c/-
Fe_supp_jason_reseq	-0.603	-0.223
low_pH_jason_reseq	-0.619	-0.714
NO_jason_reseq	-0.186	0.071
B6_jason_reseq	0.108	0.016
MHCII_jason_reseq	-0.022	0.209
Isoniazid02	1.461	-0.113
Rifampicin4	-0.368	-0.097
Ethambutol3	0.653	-0.022
Meropenem3	0.298	-0.4
Vancomycin16	0.223	-0.194
Rv2680_day32	-1.456	-1.068
H37Rv_KO_MarP	-0.027	-0.078
hypoxia_3wks	-0.327	0.171
hypoxia_6wks	-0.303	0.177
glycerol	-1.181	-0.658
cholesterol	-0.622	-0.495
AJ	0.059	-0.126
Bibs02	-0.004	-0.099
Bibs02c	0.767	0.391
BL6	-0.075	0.237
BL6a	0.594	0.194
BXD01	-0.069	0.109
BXD010	-0.159	0.549
BXD011	-0.574	0.467
BXD03	0.197	0.122
BXD04	0.222	0.014
BXD05	0.01	-0.453
BXD06	-0.08	0.035
BXD07	0.022	0.259
BXD08	0.496	0.491
BXD09	-0.253	0.253
CAST	0.245	0.272
CCcont	-0.166	0.236
DS01	0.055	0.062
DS02	0.095	-0.076
DS04	1.226	0.169
DS0c	0.423	0.314
GP01	0.084	0.099
GP02	0.128	0.592
GP0c	0.311	-0.056
NOD	-0.096	0.234
NZO	0.157	0.513
PWK	-0.227	0.428
H37Rv_KO_CtpC	-0.258	0.364
H37Rv_KO_CtpD	0.364	0.696
H37Rv_KO_Rv1272	0.077	1.149
H37Rv_KO_SugABC	-0.21	0.374
H37Rv_KO_MbtN	-0.128	0.381
Trans05	-0.318	0.325
macrophage_unactivated	0.657	0.139
IL1	0.647	0.332
Rapamycin	0.881	0.04
Tcell	0.779	0.029
GMCSF	0.28	0.174
IFNab	0.795	0.121
IFNg	0.81	0.484
IFNg_GMCSF1	0.126	0.531
Rv1432_day32	0.549	0.519
Rv1565c_day32	0.077	0.21
secA2_input	-0.019	0.913
delta_Rv3594	-0.805	0.095
delta_Rv3717	-0.141	-0.249
delta_Rv3811	-0.669	-0.397
delta_Rv0954	-0.216	-0.649
PonA1	0.252	-0.321
EccD1_KO	0.51	0.227
EspI_KO	0.225	0.465
PE35_KO	0.149	0.376
PPE68_KO	0.291	0.118
glycerol2	0.478	0.738
lignocerate	1.055	0.82
oleate	0.398	1.007
phosphatidylcholine	0.864	0.91
acetate	-0.105	0.096
glucAc	0.305	0.207
Rv0950ko	0.492	0.874
Rv1096ko	0.0	0.214
Rv3684ko	0.052	0.049
delta_otsA_trehalose	0.016	0.871