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 Rv2118c/-:

update plot	correlation	link to info on gene
Rv0814c/sseC2	(cc=0.6185)	info on Rv0814c/sseC2
Rv2656c/-	(cc=0.5592)	info on Rv2656c/-
Rv0658c/-	(cc=0.4919)	info on Rv0658c/-
Rv2195/qcrA	(cc=0.4906)	info on Rv2195/qcrA
Rv1764/-	(cc=0.4895)	info on Rv1764/-
Rv2793c/truB	(cc=0.4861)	info on Rv2793c/truB
Rv1756c/-	(cc=0.483)	info on Rv1756c/-
Rv2840c/-	(cc=0.4768)	info on Rv2840c/-
Rv3466/-	(cc=0.4754)	info on Rv3466/-
Rv2092c/helY	(cc=0.4735)	info on Rv2092c/helY

Correlation of Rv2118c/- with Rv2195/qcrA

Normalized LFCs for Rv2118c/-:
(description and provenance of datasets)

	Rv2118c/-	Rv2195/qcrA
Fe_supp_jason_reseq	-0.576	0.0
low_pH_jason_reseq	0.709	0.979
NO_jason_reseq	1.142	0.0
B6_jason_reseq	1.1	0.0
MHCII_jason_reseq	-0.633	0.0
Isoniazid02	1.505	-0.383
Rifampicin4	-0.712	0.0
Ethambutol3	0.675	-0.153
Meropenem3	-0.843	-0.151
Vancomycin16	-0.637	-0.334
Rv2680_day32	-0.267	0.0
H37Rv_KO_MarP	-0.917	0.195
hypoxia_3wks	-1.101	0.0
hypoxia_6wks	-0.056	0.0
glycerol	-0.284	0.0
cholesterol	-1.711	0.0
AJ	0.965	0.0
Bibs02	0.709	0.642
Bibs02c	0.599	0.0
BL6	-0.458	0.0
BL6a	0.149	0.0
BXD01	0.72	0.0
BXD010	0.631	0.0
BXD011	0.071	0.0
BXD03	0.424	0.0
BXD04	0.727	0.0
BXD05	0.459	0.0
BXD06	0.411	0.0
BXD07	-0.112	0.0
BXD08	-0.079	0.0
BXD09	0.164	0.0
CAST	1.615	0.0
CCcont	-0.503	0.0
DS01	0.631	0.0
DS02	1.418	0.0
DS04	1.315	0.682
DS0c	0.707	0.0
GP01	0.232	0.0
GP02	-0.129	0.0
GP0c	-0.177	0.0
NOD	1.077	0.0
NZO	0.354	0.0
PWK	0.512	0.0
H37Rv_KO_CtpC	0.846	0.162
H37Rv_KO_CtpD	0.006	0.0
H37Rv_KO_Rv1272	0.226	0.0
H37Rv_KO_SugABC	0.398	0.0
H37Rv_KO_MbtN	0.33	0.283
Trans05	1.255	0.0
macrophage_unactivated	-0.022	0.0
IL1	-0.581	0.0
Rapamycin	-0.39	0.0
Tcell	-0.978	0.0
GMCSF	-0.298	0.0
IFNab	-1.01	0.0
IFNg	-0.224	0.0
IFNg_GMCSF1	0.597	0.0
Rv1432_day32	-1.425	0.0
Rv1565c_day32	0.13	0.0
secA2_input	0.351	0.47
delta_Rv3594	-2.169	-1.898
delta_Rv3717	-1.544	-1.258
delta_Rv3811	-1.89	-1.487
delta_Rv0954	-1.101	-1.782
PonA1	-0.584	-1.592
EccD1_KO	0.556	0.0
EspI_KO	0.04	0.0
PE35_KO	-0.327	0.403
PPE68_KO	-0.189	0.442
glycerol2	-0.052	0.0
lignocerate	-0.532	0.0
oleate	-0.031	0.0
phosphatidylcholine	-0.23	0.0
acetate	0.234	0.0
glucAc	-0.276	0.143
Rv0950ko	-0.446	0.347
Rv1096ko	-0.47	-0.793
Rv3684ko	-0.511	-0.861
delta_otsA_trehalose	-0.023	0.133