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 Rv0250c/-:

update plot	correlation	link to info on gene
Rv3125c/PPE49	(cc=0.5241)	info on Rv3125c/PPE49
Rv0734/mapA	(cc=0.5151)	info on Rv0734/mapA
Rv2735c/-	(cc=0.5081)	info on Rv2735c/-
Rv1337/-	(cc=0.5052)	info on Rv1337/-
Rv1891/-	(cc=0.5024)	info on Rv1891/-
Rv2129c/-	(cc=0.4983)	info on Rv2129c/-
Rv3904c/esxE	(cc=0.4943)	info on Rv3904c/esxE
Rv1496/-	(cc=0.489)	info on Rv1496/-
Rv3537/kstD	(cc=0.4887)	info on Rv3537/kstD
Rv1505c/-	(cc=0.4839)	info on Rv1505c/-

Correlation of Rv0250c/- with Rv2129c/-

Normalized LFCs for Rv0250c/-:
(description and provenance of datasets)

	Rv0250c/-	Rv2129c/-
Fe_supp_jason_reseq	0.988	0.497
low_pH_jason_reseq	1.061	0.146
NO_jason_reseq	-0.147	-0.244
B6_jason_reseq	-0.768	-0.487
MHCII_jason_reseq	-0.532	-0.909
Isoniazid02	0.343	-0.275
Rifampicin4	0.85	0.301
Ethambutol3	0.472	0.261
Meropenem3	0.879	-0.302
Vancomycin16	1.443	0.353
Rv2680_day32	0.412	-1.274
H37Rv_KO_MarP	0.265	-0.158
hypoxia_3wks	0.71	0.132
hypoxia_6wks	-0.073	-0.088
glycerol	0.051	-0.424
cholesterol	0.174	-0.445
AJ	1.496	-0.113
Bibs02	-0.302	-0.301
Bibs02c	-3.086	-1.02
BL6	1.812	-1.14
BL6a	0.283	-0.019
BXD01	1.602	0.107
BXD010	0.911	0.884
BXD011	0.316	0.999
BXD03	1.795	0.88
BXD04	2.336	0.124
BXD05	1.498	0.298
BXD06	2.132	0.702
BXD07	1.59	0.543
BXD08	1.168	0.45
BXD09	2.282	0.586
CAST	-0.38	-0.889
CCcont	2.393	-0.895
DS01	-1.222	-0.756
DS02	-0.425	-1.093
DS04	4.015	-0.018
DS0c	-2.982	-0.96
GP01	2.633	-0.481
GP02	1.875	-1.021
GP0c	2.112	-0.012
NOD	-0.981	-1.095
NZO	-0.39	-0.562
PWK	0.912	-1.016
H37Rv_KO_CtpC	2.749	0.883
H37Rv_KO_CtpD	3.664	1.139
H37Rv_KO_Rv1272	0.46	0.798
H37Rv_KO_SugABC	1.496	1.128
H37Rv_KO_MbtN	3.379	1.637
Trans05	2.101	0.174
macrophage_unactivated	-0.06	0.215
IL1	0.205	0.727
Rapamycin	0.577	0.236
Tcell	-0.681	-0.13
GMCSF	1.053	0.755
IFNab	-1.536	0.399
IFNg	1.486	-0.216
IFNg_GMCSF1	1.103	-0.126
Rv1432_day32	0.0	0.263
Rv1565c_day32	0.0	-0.22
secA2_input	-0.581	-0.578
delta_Rv3594	0.696	0.505
delta_Rv3717	1.34	0.385
delta_Rv3811	2.043	-0.089
delta_Rv0954	2.191	0.354
PonA1	-0.031	0.0
EccD1_KO	0.059	-1.677
EspI_KO	0.376	-1.064
PE35_KO	-0.251	-0.989
PPE68_KO	0.342	-1.085
glycerol2	-0.806	-0.276
lignocerate	-1.548	-1.167
oleate	-0.121	0.116
phosphatidylcholine	-0.088	-0.381
acetate	0.229	-1.99
glucAc	-1.367	-2.429
Rv0950ko	1.978	0.467
Rv1096ko	1.595	0.389
Rv3684ko	1.67	-0.033
delta_otsA_trehalose	-0.897	0.013