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 Rv0053/rpsF:

update plot	correlation	link to info on gene
Rv3228/-	(cc=0.5477)	info on Rv3228/-
Rv3060c/-	(cc=0.5362)	info on Rv3060c/-
Rv2907c/rimM	(cc=0.5361)	info on Rv2907c/rimM
Rv3276c/purK	(cc=0.5335)	info on Rv3276c/purK
Rv0806c/cpsY	(cc=0.526)	info on Rv0806c/cpsY
Rv3032/-	(cc=0.5098)	info on Rv3032/-
Rv2971/-	(cc=0.5071)	info on Rv2971/-
Rv0348/-	(cc=0.4916)	info on Rv0348/-
Rv2913c/-	(cc=0.4889)	info on Rv2913c/-
Rv2042c/-	(cc=0.4828)	info on Rv2042c/-

Correlation of Rv0053/rpsF with Rv0348/-

Normalized LFCs for Rv0053/rpsF:
(description and provenance of datasets)

	Rv0053/rpsF	Rv0348/-
Fe_supp_jason_reseq	0.0	-0.24
low_pH_jason_reseq	0.0	-0.979
NO_jason_reseq	0.0	-0.263
B6_jason_reseq	0.0	-1.606
MHCII_jason_reseq	0.0	-0.257
Isoniazid02	-1.379	0.093
Rifampicin4	-1.373	0.341
Ethambutol3	3.122	3.157
Meropenem3	1.198	0.851
Vancomycin16	0.883	0.488
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.793	-0.279
hypoxia_3wks	0.0	-0.203
hypoxia_6wks	0.0	-1.119
glycerol	0.0	-0.607
cholesterol	0.0	0.121
AJ	0.0	-0.442
Bibs02	0.0	0.0
Bibs02c	0.0	1.647
BL6	0.0	0.154
BL6a	0.0	1.56
BXD01	0.0	0.348
BXD010	0.0	-0.057
BXD011	0.0	0.424
BXD03	0.0	0.493
BXD04	0.0	0.723
BXD05	0.0	0.82
BXD06	0.0	0.747
BXD07	0.0	0.274
BXD08	0.0	0.992
BXD09	0.0	0.117
CAST	0.0	-0.21
CCcont	0.0	1.294
DS01	0.0	0.0
DS02	0.0	1.045
DS04	0.194	0.0
DS0c	0.0	1.475
GP01	0.0	-0.09
GP02	0.0	-0.533
GP0c	0.0	0.997
NOD	0.0	1.079
NZO	0.0	-0.98
PWK	0.0	-0.59
H37Rv_KO_CtpC	0.0	-0.072
H37Rv_KO_CtpD	0.348	1.49
H37Rv_KO_Rv1272	0.0	0.79
H37Rv_KO_SugABC	0.099	-0.718
H37Rv_KO_MbtN	0.103	-0.506
Trans05	0.0	0.258
macrophage_unactivated	0.0	-1.348
IL1	0.0	-0.587
Rapamycin	0.0	-0.875
Tcell	0.0	-0.121
GMCSF	0.0	-0.412
IFNab	0.0	-0.112
IFNg	0.0	0.879
IFNg_GMCSF1	0.0	-0.49
Rv1432_day32	0.0	-0.494
Rv1565c_day32	0.0	0.319
secA2_input	-0.122	-0.225
delta_Rv3594	1.53	1.052
delta_Rv3717	1.513	1.357
delta_Rv3811	0.87	2.06
delta_Rv0954	1.852	1.013
PonA1	0.0	-0.196
EccD1_KO	0.414	1.23
EspI_KO	1.791	1.406
PE35_KO	1.832	1.759
PPE68_KO	1.113	2.46
glycerol2	0.0	0.581
lignocerate	0.0	0.415
oleate	0.0	0.257
phosphatidylcholine	0.0	0.478
acetate	0.0	1.026
glucAc	0.0	0.429
Rv0950ko	0.0	-1.71
Rv1096ko	0.0	-1.11
Rv3684ko	1.444	-0.367
delta_otsA_trehalose	0.254	1.267