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 Rv0893c/-:

update plot	correlation	link to info on gene
Rv1199c/-	(cc=0.5739)	info on Rv1199c/-
Rv2512c/-	(cc=0.5406)	info on Rv2512c/-
Rv0755c/PPE12	(cc=0.5152)	info on Rv0755c/PPE12
Rv1676/-	(cc=0.48)	info on Rv1676/-
Rv1260/-	(cc=0.4587)	info on Rv1260/-
Rv3115/-	(cc=0.4523)	info on Rv3115/-
Rv1597/-	(cc=0.4394)	info on Rv1597/-
Rv2176/pknL	(cc=0.4386)	info on Rv2176/pknL
Rv3679/-	(cc=0.4238)	info on Rv3679/-
Rv2432c/-	(cc=0.4196)	info on Rv2432c/-

Correlation of Rv0893c/- with Rv2176/pknL

Normalized LFCs for Rv0893c/-:
(description and provenance of datasets)

	Rv0893c/-	Rv2176/pknL
Fe_supp_jason_reseq	-1.626	0.42
low_pH_jason_reseq	0.448	0.315
NO_jason_reseq	0.953	0.617
B6_jason_reseq	-0.449	0.06
MHCII_jason_reseq	0.189	-0.018
Isoniazid02	0.0	-0.674
Rifampicin4	0.0	-0.999
Ethambutol3	-0.281	-2.089
Meropenem3	-0.435	-0.052
Vancomycin16	0.528	-0.883
Rv2680_day32	0.337	-0.51
H37Rv_KO_MarP	0.26	-2.077
hypoxia_3wks	0.183	0.0
hypoxia_6wks	0.691	0.142
glycerol	0.66	-0.373
cholesterol	0.358	0.21
AJ	0.232	0.158
Bibs02	2.078	1.285
Bibs02c	0.684	1.299
BL6	0.0	0.085
BL6a	0.544	0.983
BXD01	-0.361	0.368
BXD010	0.513	0.506
BXD011	0.315	0.26
BXD03	0.664	-0.8
BXD04	0.66	0.1
BXD05	1.397	-0.47
BXD06	0.401	0.073
BXD07	0.182	-0.539
BXD08	-0.431	0.637
BXD09	0.268	-0.146
CAST	0.078	-0.312
CCcont	-0.053	0.18
DS01	1.947	1.591
DS02	1.613	1.416
DS04	1.192	2.264
DS0c	1.332	2.077
GP01	-0.715	1.011
GP02	-0.159	-0.359
GP0c	0.694	-0.24
NOD	-0.08	0.843
NZO	0.068	-0.058
PWK	-0.216	1.155
H37Rv_KO_CtpC	1.028	0.957
H37Rv_KO_CtpD	1.658	0.853
H37Rv_KO_Rv1272	1.093	0.808
H37Rv_KO_SugABC	0.751	0.92
H37Rv_KO_MbtN	-0.24	0.302
Trans05	-0.363	1.104
macrophage_unactivated	-0.275	0.546
IL1	-0.258	-0.077
Rapamycin	-0.703	-0.335
Tcell	-0.433	0.251
GMCSF	-0.605	-0.069
IFNab	0.0	-0.16
IFNg	-0.484	1.09
IFNg_GMCSF1	-0.88	-0.811
Rv1432_day32	0.0	-0.763
Rv1565c_day32	0.234	0.0
secA2_input	-0.787	-0.377
delta_Rv3594	0.616	0.545
delta_Rv3717	-0.185	0.39
delta_Rv3811	0.321	0.269
delta_Rv0954	-0.328	-1.368
PonA1	-0.293	-2.68
EccD1_KO	0.263	0.457
EspI_KO	0.117	0.519
PE35_KO	0.455	0.405
PPE68_KO	-0.272	0.102
glycerol2	0.559	0.241
lignocerate	0.913	0.449
oleate	-0.411	-1.664
phosphatidylcholine	0.559	0.723
acetate	0.743	0.09
glucAc	0.605	0.161
Rv0950ko	-0.899	-0.811
Rv1096ko	-0.633	-1.408
Rv3684ko	-1.074	-0.943
delta_otsA_trehalose	-0.491	0.158