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 Rv3165c/-:

update plot	correlation	link to info on gene
Rv2740/ephG	(cc=0.4995)	info on Rv2740/ephG
Rv0769/-	(cc=0.4668)	info on Rv0769/-
Rv0499/-	(cc=0.4548)	info on Rv0499/-
Rv1499/-	(cc=0.4524)	info on Rv1499/-
Rv2308/-	(cc=0.4365)	info on Rv2308/-
Rv2060/-	(cc=0.4245)	info on Rv2060/-
Rv1219c/-	(cc=0.4109)	info on Rv1219c/-
Rv3553/-	(cc=0.4092)	info on Rv3553/-
Rv1082/mca	(cc=0.4085)	info on Rv1082/mca
Rv2437/-	(cc=0.4063)	info on Rv2437/-

Correlation of Rv3165c/- with Rv1082/mca

Normalized LFCs for Rv3165c/-:
(description and provenance of datasets)

	Rv3165c/-	Rv1082/mca
Fe_supp_jason_reseq	1.427	1.88
low_pH_jason_reseq	0.151	1.504
NO_jason_reseq	-1.394	-1.638
B6_jason_reseq	0.333	0.914
MHCII_jason_reseq	0.308	0.26
Isoniazid02	-0.295	-0.976
Rifampicin4	-0.309	0.179
Ethambutol3	-0.652	0.632
Meropenem3	0.024	-0.229
Vancomycin16	0.027	-0.44
Rv2680_day32	2.941	-0.148
H37Rv_KO_MarP	0.684	1.043
hypoxia_3wks	-0.327	-0.55
hypoxia_6wks	-0.503	0.601
glycerol	0.718	0.298
cholesterol	-0.506	-0.435
AJ	0.128	0.277
Bibs02	-0.603	-1.476
Bibs02c	-1.291	-1.206
BL6	-0.342	0.661
BL6a	0.161	0.0
BXD01	0.173	-0.085
BXD010	1.189	0.596
BXD011	0.478	0.069
BXD03	0.706	0.69
BXD04	0.913	0.851
BXD05	-0.249	0.073
BXD06	0.829	-0.205
BXD07	0.687	0.48
BXD08	0.143	-0.204
BXD09	0.486	0.328
CAST	0.305	0.259
CCcont	0.661	0.601
DS01	-0.32	-1.145
DS02	-2.757	0.035
DS04	-1.577	-0.464
DS0c	-0.715	-0.124
GP01	-0.715	0.513
GP02	-1.448	-0.295
GP0c	-0.98	-0.211
NOD	-0.199	0.088
NZO	0.564	0.978
PWK	0.159	0.567
H37Rv_KO_CtpC	-0.567	-0.405
H37Rv_KO_CtpD	1.921	-0.278
H37Rv_KO_Rv1272	-0.082	0.139
H37Rv_KO_SugABC	-0.562	1.05
H37Rv_KO_MbtN	0.877	0.73
Trans05	1.323	0.137
macrophage_unactivated	1.266	-0.098
IL1	1.023	0.673
Rapamycin	0.657	-0.77
Tcell	0.896	-0.365
GMCSF	1.766	-0.166
IFNab	0.686	-0.438
IFNg	1.406	0.04
IFNg_GMCSF1	0.0	0.952
Rv1432_day32	-1.042	0.348
Rv1565c_day32	1.567	0.251
secA2_input	0.18	0.161
delta_Rv3594	-0.529	0.202
delta_Rv3717	-0.062	0.0
delta_Rv3811	0.568	-0.308
delta_Rv0954	-1.112	-0.698
PonA1	-1.602	0.361
EccD1_KO	0.414	0.382
EspI_KO	1.198	0.0
PE35_KO	0.84	0.117
PPE68_KO	0.771	-0.099
glycerol2	0.717	0.0
lignocerate	1.492	0.128
oleate	-3.549	-2.325
phosphatidylcholine	0.378	-1.02
acetate	1.197	1.794
glucAc	1.646	1.156
Rv0950ko	0.265	0.455
Rv1096ko	0.09	-0.115
Rv3684ko	-0.049	-0.157
delta_otsA_trehalose	0.111	-1.089