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 Rv1667c/-:

update plot	correlation	link to info on gene
Rv2730/-	(cc=0.4737)	info on Rv2730/-
Rv2568c/-	(cc=0.4511)	info on Rv2568c/-
Rv2134c/-	(cc=0.4495)	info on Rv2134c/-
Rv1886c/fbpB	(cc=0.4388)	info on Rv1886c/fbpB
Rv1364c/-	(cc=0.4356)	info on Rv1364c/-
Rv2886c/-	(cc=0.4301)	info on Rv2886c/-
Rv3818/-	(cc=0.4265)	info on Rv3818/-
Rv3305c/amiA1	(cc=0.4225)	info on Rv3305c/amiA1
Rv0999/-	(cc=0.4204)	info on Rv0999/-
Rv3050c/-	(cc=0.4194)	info on Rv3050c/-

Correlation of Rv1667c/- with Rv2134c/-

Normalized LFCs for Rv1667c/-:
(description and provenance of datasets)

	Rv1667c/-	Rv2134c/-
Fe_supp_jason_reseq	0.344	0.297
low_pH_jason_reseq	-0.241	1.402
NO_jason_reseq	0.176	-0.142
B6_jason_reseq	-1.077	-0.671
MHCII_jason_reseq	0.53	-1.365
Isoniazid02	0.473	1.529
Rifampicin4	-0.658	0.07
Ethambutol3	-0.213	-0.032
Meropenem3	-0.404	-0.25
Vancomycin16	-0.464	-0.361
Rv2680_day32	1.135	0.576
H37Rv_KO_MarP	-0.538	0.164
hypoxia_3wks	0.861	0.79
hypoxia_6wks	0.491	0.449
glycerol	1.321	1.514
cholesterol	0.01	0.072
AJ	0.297	2.664
Bibs02	0.709	0.135
Bibs02c	0.182	0.053
BL6	0.369	1.098
BL6a	0.479	1.845
BXD01	0.428	1.944
BXD010	0.363	0.894
BXD011	0.54	1.787
BXD03	0.407	2.13
BXD04	0.863	2.684
BXD05	0.373	1.601
BXD06	0.651	1.723
BXD07	0.9	1.997
BXD08	1.084	1.765
BXD09	0.462	1.672
CAST	-0.239	-0.06
CCcont	0.889	2.265
DS01	-0.091	-0.123
DS02	0.578	-0.635
DS04	0.236	0.738
DS0c	0.096	0.707
GP01	1.166	1.676
GP02	0.274	0.119
GP0c	0.689	1.772
NOD	0.584	2.185
NZO	0.131	2.438
PWK	-0.091	0.526
H37Rv_KO_CtpC	0.153	0.646
H37Rv_KO_CtpD	0.444	2.104
H37Rv_KO_Rv1272	1.011	0.767
H37Rv_KO_SugABC	-0.207	0.539
H37Rv_KO_MbtN	-0.178	2.6
Trans05	1.45	2.043
macrophage_unactivated	0.363	0.297
IL1	0.504	-1.089
Rapamycin	0.792	-0.417
Tcell	0.267	0.052
GMCSF	0.124	-0.129
IFNab	1.046	1.376
IFNg	0.032	-0.818
IFNg_GMCSF1	-0.116	-0.657
Rv1432_day32	0.369	-0.442
Rv1565c_day32	-0.03	-0.518
secA2_input	0.158	-1.199
delta_Rv3594	0.233	1.104
delta_Rv3717	1.169	0.985
delta_Rv3811	0.404	1.38
delta_Rv0954	1.001	1.147
PonA1	0.671	-1.337
EccD1_KO	0.405	-0.276
EspI_KO	0.898	-0.653
PE35_KO	0.583	-0.586
PPE68_KO	0.47	-0.921
glycerol2	-0.036	-0.214
lignocerate	0.296	-0.725
oleate	-1.136	-1.345
phosphatidylcholine	-0.31	-1.246
acetate	0.475	0.118
glucAc	0.221	-0.055
Rv0950ko	0.292	0.0
Rv1096ko	-0.021	-1.71
Rv3684ko	-0.655	-2.122
delta_otsA_trehalose	-0.103	-0.164