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 Rv1509/-

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

	Rv1585c/-	Rv1509/-
Fe_supp_jason_reseq	1.121	0.838
low_pH_jason_reseq	0.169	-0.472
NO_jason_reseq	0.391	-0.173
B6_jason_reseq	-0.723	0.406
MHCII_jason_reseq	-0.485	-0.031
Isoniazid02	0.131	0.192
Rifampicin4	0.796	0.073
Ethambutol3	-0.117	-0.069
Meropenem3	1.022	-0.212
Vancomycin16	0.878	0.143
Rv2680_day32	0.249	-0.183
H37Rv_KO_MarP	0.127	-0.138
hypoxia_3wks	-0.235	-1.097
hypoxia_6wks	-0.526	0.04
glycerol	-0.809	0.211
cholesterol	0.193	0.475
AJ	0.983	1.649
Bibs02	-1.507	-0.158
Bibs02c	-0.102	-0.747
BL6	0.569	0.619
BL6a	0.092	0.65
BXD01	0.278	1.03
BXD010	-0.345	1.154
BXD011	-0.51	1.071
BXD03	1.103	1.07
BXD04	-0.495	0.844
BXD05	1.934	1.52
BXD06	0.122	1.139
BXD07	-0.138	0.798
BXD08	0.994	1.563
BXD09	-0.216	1.182
CAST	-0.112	0.846
CCcont	0.069	0.687
DS01	0.683	0.577
DS02	0.629	0.227
DS04	0.696	0.786
DS0c	-0.333	-0.536
GP01	-0.625	0.454
GP02	-0.393	1.57
GP0c	0.911	-0.277
NOD	2.94	3.544
NZO	-1.097	1.244
PWK	0.494	0.831
H37Rv_KO_CtpC	2.372	0.911
H37Rv_KO_CtpD	3.324	1.976
H37Rv_KO_Rv1272	1.597	0.921
H37Rv_KO_SugABC	1.362	-0.085
H37Rv_KO_MbtN	0.644	0.841
Trans05	0.423	0.375
macrophage_unactivated	2.547	0.0
IL1	-1.231	0.4
Rapamycin	-0.921	-0.97
Tcell	0.554	0.153
GMCSF	0.0	0.356
IFNab	-1.255	-0.45
IFNg	-1.109	0.42
IFNg_GMCSF1	1.012	-0.075
Rv1432_day32	0.0	1.119
Rv1565c_day32	0.455	1.579
secA2_input	-1.077	-1.363
delta_Rv3594	-2.071	-0.707
delta_Rv3717	-1.396	-0.466
delta_Rv3811	-1.456	-0.518
delta_Rv0954	-0.677	-1.083
PonA1	-0.503	-0.304
EccD1_KO	0.125	0.062
EspI_KO	-1.001	-1.058
PE35_KO	-0.117	-0.35
PPE68_KO	0.8	-0.32
glycerol2	-0.161	-0.21
lignocerate	-0.375	-0.386
oleate	0.152	0.53
phosphatidylcholine	0.15	0.241
acetate	0.263	-0.175
glucAc	0.485	-0.436
Rv0950ko	1.839	-0.917
Rv1096ko	0.332	-0.986
Rv3684ko	0.904	-0.439
delta_otsA_trehalose	0.039	-0.564