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 Rv1157c/-:

update plot	correlation	link to info on gene
Rv2198c/mmpS3	(cc=0.6302)	info on Rv2198c/mmpS3
Rv3044/fecB	(cc=0.6168)	info on Rv3044/fecB
Rv3593/lpqF	(cc=0.5927)	info on Rv3593/lpqF
Rv2400c/subI	(cc=0.5644)	info on Rv2400c/subI
Rv2399c/cysT	(cc=0.5581)	info on Rv2399c/cysT
Rv3035/-	(cc=0.5514)	info on Rv3035/-
Rv2256c/-	(cc=0.5501)	info on Rv2256c/-
Rv2397c/cysA1	(cc=0.5409)	info on Rv2397c/cysA1
Rv3490/otsA	(cc=0.533)	info on Rv3490/otsA
Rv2837c/-	(cc=0.5173)	info on Rv2837c/-

Correlation of Rv1157c/- with Rv2198c/mmpS3

Normalized LFCs for Rv1157c/-:
(description and provenance of datasets)

	Rv1157c/-	Rv2198c/mmpS3
Fe_supp_jason_reseq	1.209	1.897
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.292	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-1.144	0.469
Rifampicin4	2.025	-0.712
Ethambutol3	-1.288	-0.153
Meropenem3	-3.399	-0.315
Vancomycin16	-1.016	-0.698
Rv2680_day32	-1.699	-0.33
H37Rv_KO_MarP	-3.705	-6.0
hypoxia_3wks	-1.116	0.0
hypoxia_6wks	-0.808	-0.209
glycerol	2.817	0.709
cholesterol	1.367	0.145
AJ	-0.168	0.0
Bibs02	0.55	0.0
Bibs02c	1.657	0.0
BL6	-0.405	0.0
BL6a	1.502	0.0
BXD01	0.64	0.0
BXD010	-0.415	0.0
BXD011	-0.54	0.0
BXD03	-0.573	0.0
BXD04	-0.524	0.0
BXD05	-0.201	0.135
BXD06	-0.566	0.0
BXD07	-0.1	0.0
BXD08	-0.564	0.0
BXD09	-0.328	0.0
CAST	-0.344	0.0
CCcont	1.643	1.492
DS01	0.583	0.0
DS02	-0.158	0.0
DS04	0.583	0.533
DS0c	-0.702	0.0
GP01	-0.418	0.0
GP02	-0.353	0.0
GP0c	-0.551	0.0
NOD	0.0	0.0
NZO	0.6	0.0
PWK	1.795	0.0
H37Rv_KO_CtpC	0.109	0.162
H37Rv_KO_CtpD	-0.295	0.241
H37Rv_KO_Rv1272	-0.457	0.0
H37Rv_KO_SugABC	0.245	0.348
H37Rv_KO_MbtN	1.319	0.362
Trans05	0.171	0.0
macrophage_unactivated	0.761	0.0
IL1	-0.409	0.0
Rapamycin	-0.424	0.0
Tcell	0.411	0.0
GMCSF	-0.364	0.0
IFNab	-0.417	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-3.419	-0.456
delta_Rv3594	1.594	1.937
delta_Rv3717	1.203	0.532
delta_Rv3811	0.094	0.376
delta_Rv0954	-0.057	0.152
PonA1	0.546	0.566
EccD1_KO	-4.177	-4.654
EspI_KO	-1.874	-4.954
PE35_KO	2.191	0.204
PPE68_KO	1.008	-1.177
glycerol2	0.935	-0.369
lignocerate	1.859	-0.153
oleate	-0.397	-0.373
phosphatidylcholine	0.859	-0.368
acetate	3.29	2.352
glucAc	2.485	-0.272
Rv0950ko	-5.717	-2.044
Rv1096ko	-2.952	-6.0
Rv3684ko	0.779	-0.305
delta_otsA_trehalose	-0.658	-0.4