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 Rv2338c/moeW

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

	Rv1585c/-	Rv2338c/moeW
Fe_supp_jason_reseq	1.121	1.904
low_pH_jason_reseq	0.169	0.425
NO_jason_reseq	0.391	1.126
B6_jason_reseq	-0.723	0.429
MHCII_jason_reseq	-0.485	0.0
Isoniazid02	0.131	-0.038
Rifampicin4	0.796	0.138
Ethambutol3	-0.117	0.235
Meropenem3	1.022	-0.266
Vancomycin16	0.878	-0.358
Rv2680_day32	0.249	-0.891
H37Rv_KO_MarP	0.127	-0.6
hypoxia_3wks	-0.235	0.116
hypoxia_6wks	-0.526	-0.251
glycerol	-0.809	-0.731
cholesterol	0.193	-0.115
AJ	0.983	0.529
Bibs02	-1.507	-0.534
Bibs02c	-0.102	0.053
BL6	0.569	0.453
BL6a	0.092	0.646
BXD01	0.278	0.766
BXD010	-0.345	0.343
BXD011	-0.51	0.614
BXD03	1.103	0.715
BXD04	-0.495	0.307
BXD05	1.934	0.626
BXD06	0.122	0.621
BXD07	-0.138	0.644
BXD08	0.994	0.482
BXD09	-0.216	0.677
CAST	-0.112	0.379
CCcont	0.069	0.341
DS01	0.683	0.229
DS02	0.629	0.941
DS04	0.696	0.0
DS0c	-0.333	-0.563
GP01	-0.625	-0.323
GP02	-0.393	0.172
GP0c	0.911	0.242
NOD	2.94	1.765
NZO	-1.097	0.147
PWK	0.494	0.098
H37Rv_KO_CtpC	2.372	-0.647
H37Rv_KO_CtpD	3.324	1.709
H37Rv_KO_Rv1272	1.597	1.223
H37Rv_KO_SugABC	1.362	0.428
H37Rv_KO_MbtN	0.644	0.373
Trans05	0.423	0.711
macrophage_unactivated	2.547	0.338
IL1	-1.231	0.08
Rapamycin	-0.921	-1.053
Tcell	0.554	0.0
GMCSF	0.0	0.071
IFNab	-1.255	-0.828
IFNg	-1.109	-0.473
IFNg_GMCSF1	1.012	-0.968
Rv1432_day32	0.0	0.034
Rv1565c_day32	0.455	-0.066
secA2_input	-1.077	-0.435
delta_Rv3594	-2.071	-0.205
delta_Rv3717	-1.396	-0.214
delta_Rv3811	-1.456	0.47
delta_Rv0954	-0.677	-0.129
PonA1	-0.503	0.394
EccD1_KO	0.125	-0.086
EspI_KO	-1.001	-1.415
PE35_KO	-0.117	-0.753
PPE68_KO	0.8	-0.083
glycerol2	-0.161	-0.307
lignocerate	-0.375	-0.434
oleate	0.152	0.379
phosphatidylcholine	0.15	0.062
acetate	0.263	-0.64
glucAc	0.485	-0.628
Rv0950ko	1.839	0.874
Rv1096ko	0.332	-0.971
Rv3684ko	0.904	-0.216
delta_otsA_trehalose	0.039	-0.342