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 Rv2308/-:

update plot	correlation	link to info on gene
Rv1987/-	(cc=0.5703)	info on Rv1987/-
Rv2019/-	(cc=0.5469)	info on Rv2019/-
Rv2212/-	(cc=0.5146)	info on Rv2212/-
Rv2240c/-	(cc=0.5056)	info on Rv2240c/-
Rv1499/-	(cc=0.5025)	info on Rv1499/-
Rv0488/-	(cc=0.4986)	info on Rv0488/-
Rv2577/-	(cc=0.4977)	info on Rv2577/-
Rv2237A/-	(cc=0.4784)	info on Rv2237A/-
Rv2237/-	(cc=0.4778)	info on Rv2237/-
Rv2007c/fdxA	(cc=0.4711)	info on Rv2007c/fdxA

Correlation of Rv2308/- with Rv1987/-

Normalized LFCs for Rv2308/-:
(description and provenance of datasets)

	Rv2308/-	Rv1987/-
Fe_supp_jason_reseq	0.702	0.813
low_pH_jason_reseq	-0.744	-0.965
NO_jason_reseq	-0.407	-0.761
B6_jason_reseq	0.621	0.082
MHCII_jason_reseq	-0.272	-0.367
Isoniazid02	-0.925	-0.346
Rifampicin4	0.412	-0.709
Ethambutol3	-0.624	-0.343
Meropenem3	-0.353	-0.765
Vancomycin16	-0.332	-0.053
Rv2680_day32	0.79	0.985
H37Rv_KO_MarP	-0.035	-0.008
hypoxia_3wks	-0.144	-1.025
hypoxia_6wks	-0.823	-0.265
glycerol	-1.22	-0.933
cholesterol	-0.363	-0.517
AJ	0.02	-0.679
Bibs02	-0.025	0.878
Bibs02c	0.009	0.697
BL6	0.099	0.885
BL6a	0.165	0.422
BXD01	-1.147	0.19
BXD010	0.296	0.059
BXD011	-0.042	0.262
BXD03	-0.277	0.478
BXD04	-0.017	0.068
BXD05	0.355	0.698
BXD06	-0.209	0.355
BXD07	-0.269	0.167
BXD08	-0.237	0.438
BXD09	0.099	0.363
CAST	-0.075	-0.289
CCcont	0.233	1.188
DS01	-0.212	0.183
DS02	-0.009	-0.072
DS04	-0.263	0.572
DS0c	-0.328	-0.083
GP01	-0.421	0.187
GP02	-0.444	-0.69
GP0c	-0.318	-0.935
NOD	-0.304	-0.295
NZO	0.319	-0.767
PWK	0.467	-0.163
H37Rv_KO_CtpC	-0.171	0.154
H37Rv_KO_CtpD	0.891	1.731
H37Rv_KO_Rv1272	-0.033	0.848
H37Rv_KO_SugABC	-0.559	1.386
H37Rv_KO_MbtN	0.555	-0.315
Trans05	0.596	0.03
macrophage_unactivated	0.672	0.265
IL1	0.131	0.409
Rapamycin	0.233	0.69
Tcell	-0.518	-0.541
GMCSF	0.298	0.393
IFNab	0.526	0.242
IFNg	0.516	0.398
IFNg_GMCSF1	0.437	0.795
Rv1432_day32	0.016	0.194
Rv1565c_day32	-0.471	0.117
secA2_input	-0.941	-0.418
delta_Rv3594	-0.093	1.086
delta_Rv3717	0.096	0.703
delta_Rv3811	0.291	0.747
delta_Rv0954	-0.665	1.417
PonA1	0.338	-0.212
EccD1_KO	0.069	-0.615
EspI_KO	0.165	-0.331
PE35_KO	0.403	-0.079
PPE68_KO	0.186	0.214
glycerol2	0.989	2.285
lignocerate	1.419	2.814
oleate	-0.166	-1.163
phosphatidylcholine	0.989	2.129
acetate	0.786	2.72
glucAc	1.334	2.553
Rv0950ko	0.241	0.033
Rv1096ko	-0.51	-0.549
Rv3684ko	0.0	-0.416
delta_otsA_trehalose	0.958	0.021