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 Rv0830/-:

update plot	correlation	link to info on gene
Rv3109/moaA1	(cc=0.5729)	info on Rv3109/moaA1
Rv1087A/-	(cc=0.5419)	info on Rv1087A/-
Rv3738c/PPE66	(cc=0.5249)	info on Rv3738c/PPE66
Rv2267c/-	(cc=0.5247)	info on Rv2267c/-
Rv0755A/-	(cc=0.5195)	info on Rv0755A/-
Rv2424c/-	(cc=0.5054)	info on Rv2424c/-
Rv2958c/-	(cc=0.4928)	info on Rv2958c/-
Rv2092c/helY	(cc=0.4855)	info on Rv2092c/helY
Rv2957/-	(cc=0.4806)	info on Rv2957/-
Rv1916/aceAb	(cc=0.4798)	info on Rv1916/aceAb

Correlation of Rv0830/- with Rv2424c/-

Normalized LFCs for Rv0830/-:
(description and provenance of datasets)

	Rv0830/-	Rv2424c/-
Fe_supp_jason_reseq	0.148	-0.701
low_pH_jason_reseq	-0.279	-1.082
NO_jason_reseq	0.357	0.349
B6_jason_reseq	0.739	0.996
MHCII_jason_reseq	0.519	-0.668
Isoniazid02	-1.003	-0.18
Rifampicin4	0.417	0.875
Ethambutol3	0.027	0.573
Meropenem3	-0.343	0.659
Vancomycin16	-0.223	0.645
Rv2680_day32	0.08	0.043
H37Rv_KO_MarP	0.042	0.676
hypoxia_3wks	-0.435	-0.167
hypoxia_6wks	-0.159	0.121
glycerol	-0.859	-1.287
cholesterol	-0.552	-0.457
AJ	0.481	0.913
Bibs02	0.367	-0.148
Bibs02c	0.202	0.196
BL6	0.037	0.455
BL6a	0.141	-0.29
BXD01	0.167	-0.276
BXD010	-0.117	-0.559
BXD011	-0.097	-0.513
BXD03	-0.453	-0.213
BXD04	-0.127	0.063
BXD05	0.288	-0.628
BXD06	-0.154	-0.469
BXD07	-0.126	-0.288
BXD08	0.018	-0.209
BXD09	-0.004	-0.242
CAST	0.21	0.295
CCcont	-0.295	-1.203
DS01	-0.258	0.33
DS02	0.274	0.775
DS04	-0.103	0.864
DS0c	0.204	0.412
GP01	0.444	0.121
GP02	1.298	0.333
GP0c	-0.138	0.623
NOD	0.205	0.413
NZO	0.285	0.909
PWK	0.459	0.645
H37Rv_KO_CtpC	0.477	-0.184
H37Rv_KO_CtpD	0.225	-0.777
H37Rv_KO_Rv1272	0.56	-0.222
H37Rv_KO_SugABC	0.499	-0.344
H37Rv_KO_MbtN	-0.078	-1.569
Trans05	0.684	1.084
macrophage_unactivated	0.237	-0.407
IL1	-0.564	-1.1
Rapamycin	-0.292	-0.93
Tcell	0.274	-0.479
GMCSF	0.185	0.098
IFNab	-0.19	-0.937
IFNg	-0.211	-0.69
IFNg_GMCSF1	-0.066	0.148
Rv1432_day32	0.023	-0.03
Rv1565c_day32	0.242	0.215
secA2_input	-0.204	0.941
delta_Rv3594	-0.341	-0.72
delta_Rv3717	-0.507	-0.865
delta_Rv3811	-0.656	-0.769
delta_Rv0954	-0.682	-1.039
PonA1	-0.446	-0.256
EccD1_KO	0.967	2.559
EspI_KO	0.034	1.657
PE35_KO	-0.067	1.173
PPE68_KO	0.643	1.654
glycerol2	0.409	0.184
lignocerate	0.269	0.183
oleate	0.668	0.604
phosphatidylcholine	0.655	0.794
acetate	-0.136	0.357
glucAc	-0.005	-0.149
Rv0950ko	0.28	-0.069
Rv1096ko	-0.401	-0.187
Rv3684ko	-0.229	-0.334
delta_otsA_trehalose	0.579	-0.098