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 Rv1585c/-:

update plot	correlation	link to info on gene
Rv0305c/PPE6	(cc=0.5774)	info on Rv0305c/PPE6
Rv3595c/PE_PGRS59	(cc=0.5115)	info on Rv3595c/PE_PGRS59
Rv1061/-	(cc=0.4846)	info on Rv1061/-
Rv0074/-	(cc=0.4725)	info on Rv0074/-
Rv2338c/moeW	(cc=0.4641)	info on Rv2338c/moeW
Rv0554/bpoC	(cc=0.4587)	info on Rv0554/bpoC
Rv3517/-	(cc=0.4422)	info on Rv3517/-
Rv2795c/-	(cc=0.4407)	info on Rv2795c/-
Rv1509/-	(cc=0.4363)	info on Rv1509/-
Rv3142c/-	(cc=0.436)	info on Rv3142c/-

Correlation of Rv1585c/- with Rv3517/-

Normalized LFCs for Rv1585c/-:
(description and provenance of datasets)

	Rv1585c/-	Rv3517/-
Fe_supp_jason_reseq	1.121	0.3
low_pH_jason_reseq	0.169	-1.491
NO_jason_reseq	0.391	-0.541
B6_jason_reseq	-0.723	-0.856
MHCII_jason_reseq	-0.485	-0.266
Isoniazid02	0.131	-0.419
Rifampicin4	0.796	0.65
Ethambutol3	-0.117	0.514
Meropenem3	1.022	1.004
Vancomycin16	0.878	-0.297
Rv2680_day32	0.249	-0.576
H37Rv_KO_MarP	0.127	0.016
hypoxia_3wks	-0.235	-0.427
hypoxia_6wks	-0.526	-0.397
glycerol	-0.809	-0.793
cholesterol	0.193	0.252
AJ	0.983	1.592
Bibs02	-1.507	0.736
Bibs02c	-0.102	0.202
BL6	0.569	0.556
BL6a	0.092	-0.076
BXD01	0.278	0.731
BXD010	-0.345	0.671
BXD011	-0.51	0.3
BXD03	1.103	0.891
BXD04	-0.495	0.279
BXD05	1.934	0.234
BXD06	0.122	0.218
BXD07	-0.138	0.084
BXD08	0.994	1.061
BXD09	-0.216	0.589
CAST	-0.112	0.14
CCcont	0.069	0.639
DS01	0.683	0.869
DS02	0.629	0.354
DS04	0.696	1.117
DS0c	-0.333	0.08
GP01	-0.625	0.805
GP02	-0.393	-0.124
GP0c	0.911	1.021
NOD	2.94	1.778
NZO	-1.097	0.803
PWK	0.494	1.833
H37Rv_KO_CtpC	2.372	1.432
H37Rv_KO_CtpD	3.324	0.683
H37Rv_KO_Rv1272	1.597	1.625
H37Rv_KO_SugABC	1.362	0.39
H37Rv_KO_MbtN	0.644	-0.153
Trans05	0.423	1.08
macrophage_unactivated	2.547	0.698
IL1	-1.231	0.036
Rapamycin	-0.921	-0.629
Tcell	0.554	0.948
GMCSF	0.0	0.063
IFNab	-1.255	0.245
IFNg	-1.109	-0.265
IFNg_GMCSF1	1.012	0.327
Rv1432_day32	0.0	-0.394
Rv1565c_day32	0.455	-0.357
secA2_input	-1.077	0.332
delta_Rv3594	-2.071	-0.408
delta_Rv3717	-1.396	-0.258
delta_Rv3811	-1.456	0.016
delta_Rv0954	-0.677	-0.362
PonA1	-0.503	1.154
EccD1_KO	0.125	0.766
EspI_KO	-1.001	-0.439
PE35_KO	-0.117	0.055
PPE68_KO	0.8	0.358
glycerol2	-0.161	0.611
lignocerate	-0.375	0.746
oleate	0.152	0.956
phosphatidylcholine	0.15	0.728
acetate	0.263	0.12
glucAc	0.485	0.223
Rv0950ko	1.839	0.036
Rv1096ko	0.332	1.616
Rv3684ko	0.904	1.33
delta_otsA_trehalose	0.039	0.831