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 Rv2295/-:

update plot	correlation	link to info on gene
Rv2913c/-	(cc=0.5199)	info on Rv2913c/-
Rv2136c/-	(cc=0.519)	info on Rv2136c/-
Rv1135c/PPE16	(cc=0.4995)	info on Rv1135c/PPE16
Rv3607c/folB	(cc=0.4939)	info on Rv3607c/folB
Rv2971/-	(cc=0.4926)	info on Rv2971/-
Rv2599/-	(cc=0.4727)	info on Rv2599/-
Rv1313c/-	(cc=0.4587)	info on Rv1313c/-
Rv3798/-	(cc=0.456)	info on Rv3798/-
Rv2089c/pepE	(cc=0.4552)	info on Rv2089c/pepE
Rv2174/mptA	(cc=0.4515)	info on Rv2174/mptA

Correlation of Rv2295/- with Rv2913c/-

Normalized LFCs for Rv2295/-:
(description and provenance of datasets)

	Rv2295/-	Rv2913c/-
Fe_supp_jason_reseq	-0.469	0.0
low_pH_jason_reseq	-0.375	-0.499
NO_jason_reseq	-0.27	-0.05
B6_jason_reseq	-0.341	-0.229
MHCII_jason_reseq	0.692	0.627
Isoniazid02	0.183	0.138
Rifampicin4	0.341	0.065
Ethambutol3	1.262	0.578
Meropenem3	-0.152	0.344
Vancomycin16	0.281	0.371
Rv2680_day32	-1.558	-0.857
H37Rv_KO_MarP	-0.33	0.279
hypoxia_3wks	0.128	0.0
hypoxia_6wks	0.117	0.257
glycerol	-0.645	-1.186
cholesterol	-0.305	-0.435
AJ	0.373	-0.309
Bibs02	0.734	-0.266
Bibs02c	-0.343	-0.433
BL6	-0.798	-1.231
BL6a	-0.261	-0.798
BXD01	-0.029	-0.374
BXD010	0.438	-0.421
BXD011	0.34	-0.573
BXD03	-0.443	-0.247
BXD04	-0.622	-0.355
BXD05	0.13	-1.003
BXD06	0.102	-0.736
BXD07	0.32	-0.84
BXD08	-0.488	-0.557
BXD09	-0.132	-0.442
CAST	-0.956	-0.123
CCcont	-0.737	-0.905
DS01	0.426	-0.4
DS02	0.914	-0.214
DS04	1.126	0.42
DS0c	-0.025	-0.809
GP01	-0.561	-0.23
GP02	-0.228	0.215
GP0c	-0.213	0.27
NOD	-0.877	-0.072
NZO	0.487	-0.997
PWK	-0.102	-0.31
H37Rv_KO_CtpC	-0.647	-0.052
H37Rv_KO_CtpD	0.386	-0.791
H37Rv_KO_Rv1272	-0.843	-0.59
H37Rv_KO_SugABC	0.555	-0.121
H37Rv_KO_MbtN	0.062	-0.15
Trans05	0.504	0.369
macrophage_unactivated	-1.266	-0.701
IL1	-0.507	-0.997
Rapamycin	-0.525	-0.819
Tcell	-1.131	-0.655
GMCSF	-0.23	-0.1
IFNab	-0.813	-0.354
IFNg	-0.094	-0.837
IFNg_GMCSF1	-1.32	-0.368
Rv1432_day32	0.683	-0.096
Rv1565c_day32	0.096	-0.123
secA2_input	0.866	0.549
delta_Rv3594	1.075	0.656
delta_Rv3717	0.31	0.664
delta_Rv3811	0.787	0.512
delta_Rv0954	0.889	1.123
PonA1	0.891	0.238
EccD1_KO	0.687	0.28
EspI_KO	1.229	0.063
PE35_KO	0.61	0.913
PPE68_KO	1.353	0.528
glycerol2	-0.084	-0.022
lignocerate	-0.464	-0.924
oleate	0.159	-0.145
phosphatidylcholine	-0.457	-0.297
acetate	-0.667	-0.69
glucAc	0.211	-0.873
Rv0950ko	0.326	-0.184
Rv1096ko	-0.404	0.293
Rv3684ko	-1.153	0.065
delta_otsA_trehalose	0.356	0.159