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 Rv1199c/-

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

	Rv0893c/-	Rv1199c/-
Fe_supp_jason_reseq	-1.626	-0.916
low_pH_jason_reseq	0.448	0.033
NO_jason_reseq	0.953	-0.415
B6_jason_reseq	-0.449	-0.443
MHCII_jason_reseq	0.189	-0.243
Isoniazid02	0.0	-0.749
Rifampicin4	0.0	0.393
Ethambutol3	-0.281	-0.428
Meropenem3	-0.435	-0.12
Vancomycin16	0.528	-0.573
Rv2680_day32	0.337	-0.108
H37Rv_KO_MarP	0.26	0.0
hypoxia_3wks	0.183	0.052
hypoxia_6wks	0.691	-0.136
glycerol	0.66	0.271
cholesterol	0.358	-0.222
AJ	0.232	1.008
Bibs02	2.078	1.078
Bibs02c	0.684	1.422
BL6	0.0	0.027
BL6a	0.544	0.847
BXD01	-0.361	0.458
BXD010	0.513	0.566
BXD011	0.315	0.183
BXD03	0.664	0.486
BXD04	0.66	0.624
BXD05	1.397	0.835
BXD06	0.401	0.541
BXD07	0.182	0.718
BXD08	-0.431	0.217
BXD09	0.268	0.484
CAST	0.078	1.178
CCcont	-0.053	0.095
DS01	1.947	0.794
DS02	1.613	1.084
DS04	1.192	0.857
DS0c	1.332	1.095
GP01	-0.715	0.315
GP02	-0.159	0.337
GP0c	0.694	0.223
NOD	-0.08	1.025
NZO	0.068	0.306
PWK	-0.216	0.513
H37Rv_KO_CtpC	1.028	0.998
H37Rv_KO_CtpD	1.658	0.513
H37Rv_KO_Rv1272	1.093	0.917
H37Rv_KO_SugABC	0.751	0.802
H37Rv_KO_MbtN	-0.24	0.278
Trans05	-0.363	0.989
macrophage_unactivated	-0.275	-0.237
IL1	-0.258	-0.297
Rapamycin	-0.703	-0.638
Tcell	-0.433	-1.313
GMCSF	-0.605	-0.198
IFNab	0.0	-0.342
IFNg	-0.484	-0.446
IFNg_GMCSF1	-0.88	-0.355
Rv1432_day32	0.0	-0.293
Rv1565c_day32	0.234	0.475
secA2_input	-0.787	-0.017
delta_Rv3594	0.616	-0.153
delta_Rv3717	-0.185	-0.175
delta_Rv3811	0.321	0.018
delta_Rv0954	-0.328	-0.249
PonA1	-0.293	-0.828
EccD1_KO	0.263	0.401
EspI_KO	0.117	0.633
PE35_KO	0.455	1.149
PPE68_KO	-0.272	0.595
glycerol2	0.559	-0.461
lignocerate	0.913	-0.25
oleate	-0.411	-0.659
phosphatidylcholine	0.559	-0.217
acetate	0.743	1.524
glucAc	0.605	0.339
Rv0950ko	-0.899	0.033
Rv1096ko	-0.633	-0.639
Rv3684ko	-1.074	-1.605
delta_otsA_trehalose	-0.491	-1.241