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 Rv0497/-:

update plot	correlation	link to info on gene
Rv1836c/-	(cc=0.6274)	info on Rv1836c/-
Rv3854c/ethA	(cc=0.6185)	info on Rv3854c/ethA
Rv1821/secA2	(cc=0.6117)	info on Rv1821/secA2
Rv1111c/-	(cc=0.6082)	info on Rv1111c/-
Rv2190c/-	(cc=0.5803)	info on Rv2190c/-
Rv2696c/-	(cc=0.529)	info on Rv2696c/-
Rv0385/-	(cc=0.5272)	info on Rv0385/-
Rv3207c/-	(cc=0.52)	info on Rv3207c/-
Rv2553c/-	(cc=0.5089)	info on Rv2553c/-
Rv0049/-	(cc=0.4992)	info on Rv0049/-

Correlation of Rv0497/- with Rv3854c/ethA

Normalized LFCs for Rv0497/-:
(description and provenance of datasets)

	Rv0497/-	Rv3854c/ethA
Fe_supp_jason_reseq	2.155	0.998
low_pH_jason_reseq	-1.887	-0.467
NO_jason_reseq	0.858	0.683
B6_jason_reseq	-1.375	-0.283
MHCII_jason_reseq	-1.155	0.123
Isoniazid02	-1.622	-0.387
Rifampicin4	-1.66	-0.382
Ethambutol3	-0.19	-0.039
Meropenem3	-1.154	-0.346
Vancomycin16	-2.555	-0.767
Rv2680_day32	1.148	0.22
H37Rv_KO_MarP	-3.88	-1.053
hypoxia_3wks	-1.244	-0.032
hypoxia_6wks	-1.038	-0.033
glycerol	-1.24	-0.385
cholesterol	0.748	0.709
AJ	0.487	-0.788
Bibs02	-0.697	0.201
Bibs02c	-1.773	-0.092
BL6	0.731	0.606
BL6a	-0.755	0.933
BXD01	0.209	0.281
BXD010	0.518	0.77
BXD011	0.54	0.723
BXD03	0.377	1.176
BXD04	0.524	0.639
BXD05	-0.354	1.269
BXD06	0.248	1.119
BXD07	0.786	0.804
BXD08	-0.4	0.326
BXD09	0.622	0.918
CAST	-2.853	-0.247
CCcont	1.016	0.588
DS01	-1.001	0.275
DS02	-0.129	0.391
DS04	-0.115	0.188
DS0c	-0.826	0.016
GP01	1.52	0.561
GP02	-0.025	0.572
GP0c	1.579	0.787
NOD	-2.39	-0.428
NZO	0.727	0.272
PWK	2.552	0.203
H37Rv_KO_CtpC	0.092	0.506
H37Rv_KO_CtpD	0.235	1.09
H37Rv_KO_Rv1272	0.824	1.067
H37Rv_KO_SugABC	2.212	1.875
H37Rv_KO_MbtN	3.528	0.978
Trans05	1.205	0.77
macrophage_unactivated	-0.514	0.492
IL1	0.703	0.169
Rapamycin	0.157	0.107
Tcell	-2.346	0.277
GMCSF	1.31	0.298
IFNab	2.53	0.257
IFNg	0.136	0.673
IFNg_GMCSF1	1.618	0.355
Rv1432_day32	2.092	0.454
Rv1565c_day32	-1.93	-0.025
secA2_input	-2.038	0.288
delta_Rv3594	1.086	0.649
delta_Rv3717	2.536	1.076
delta_Rv3811	0.828	1.147
delta_Rv0954	-0.282	0.171
PonA1	-0.912	0.143
EccD1_KO	-0.109	0.253
EspI_KO	-0.719	-0.317
PE35_KO	-1.485	-0.615
PPE68_KO	-0.806	-0.109
glycerol2	-0.177	-0.493
lignocerate	-0.32	-0.235
oleate	0.457	-0.179
phosphatidylcholine	-0.176	-0.43
acetate	0.0	-0.321
glucAc	0.119	-0.429
Rv0950ko	-0.615	0.639
Rv1096ko	0.305	0.274
Rv3684ko	-0.157	0.874
delta_otsA_trehalose	-0.118	-0.014