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 Rv0305c/PPE6

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

	Rv1585c/-	Rv0305c/PPE6
Fe_supp_jason_reseq	1.121	0.584
low_pH_jason_reseq	0.169	-0.248
NO_jason_reseq	0.391	-0.333
B6_jason_reseq	-0.723	-0.199
MHCII_jason_reseq	-0.485	0.274
Isoniazid02	0.131	-0.374
Rifampicin4	0.796	0.133
Ethambutol3	-0.117	0.022
Meropenem3	1.022	0.488
Vancomycin16	0.878	-0.255
Rv2680_day32	0.249	-0.065
H37Rv_KO_MarP	0.127	-0.106
hypoxia_3wks	-0.235	0.195
hypoxia_6wks	-0.526	-0.104
glycerol	-0.809	-0.252
cholesterol	0.193	-0.306
AJ	0.983	0.506
Bibs02	-1.507	0.13
Bibs02c	-0.102	0.247
BL6	0.569	0.258
BL6a	0.092	0.373
BXD01	0.278	0.345
BXD010	-0.345	0.176
BXD011	-0.51	0.352
BXD03	1.103	0.263
BXD04	-0.495	0.162
BXD05	1.934	0.679
BXD06	0.122	0.201
BXD07	-0.138	0.145
BXD08	0.994	0.476
BXD09	-0.216	0.364
CAST	-0.112	0.611
CCcont	0.069	0.096
DS01	0.683	0.558
DS02	0.629	0.501
DS04	0.696	0.401
DS0c	-0.333	0.46
GP01	-0.625	0.546
GP02	-0.393	0.609
GP0c	0.911	0.212
NOD	2.94	1.365
NZO	-1.097	0.4
PWK	0.494	0.166
H37Rv_KO_CtpC	2.372	0.431
H37Rv_KO_CtpD	3.324	1.852
H37Rv_KO_Rv1272	1.597	1.229
H37Rv_KO_SugABC	1.362	1.067
H37Rv_KO_MbtN	0.644	0.798
Trans05	0.423	0.903
macrophage_unactivated	2.547	0.846
IL1	-1.231	-0.208
Rapamycin	-0.921	0.0
Tcell	0.554	0.925
GMCSF	0.0	0.275
IFNab	-1.255	-0.151
IFNg	-1.109	0.561
IFNg_GMCSF1	1.012	0.06
Rv1432_day32	0.0	0.026
Rv1565c_day32	0.455	-0.13
secA2_input	-1.077	-0.621
delta_Rv3594	-2.071	0.0
delta_Rv3717	-1.396	-0.39
delta_Rv3811	-1.456	-0.097
delta_Rv0954	-0.677	-0.465
PonA1	-0.503	0.045
EccD1_KO	0.125	-0.743
EspI_KO	-1.001	-0.627
PE35_KO	-0.117	-0.642
PPE68_KO	0.8	-0.598
glycerol2	-0.161	-0.136
lignocerate	-0.375	-0.078
oleate	0.152	-0.138
phosphatidylcholine	0.15	0.011
acetate	0.263	-0.474
glucAc	0.485	-0.345
Rv0950ko	1.839	0.911
Rv1096ko	0.332	-0.208
Rv3684ko	0.904	0.098
delta_otsA_trehalose	0.039	-0.191