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 Rv2061c/-:

update plot	correlation	link to info on gene
Rv3525c/-	(cc=0.5587)	info on Rv3525c/-
Rv1947/-	(cc=0.4683)	info on Rv1947/-
Rv3191c/-	(cc=0.4672)	info on Rv3191c/-
Rv1365c/rsfA	(cc=0.4642)	info on Rv1365c/rsfA
Rv0456B/mazE1	(cc=0.4442)	info on Rv0456B/mazE1
Rv0868c/moaD2	(cc=0.4368)	info on Rv0868c/moaD2
Rv0582/vapC26	(cc=0.434)	info on Rv0582/vapC26
Rv0388c/PPE9	(cc=0.4214)	info on Rv0388c/PPE9
Rv2262c/-	(cc=0.4183)	info on Rv2262c/-
Rv1857/modA	(cc=0.4079)	info on Rv1857/modA

Correlation of Rv2061c/- with Rv3191c/-

Normalized LFCs for Rv2061c/-:
(description and provenance of datasets)

	Rv2061c/-	Rv3191c/-
Fe_supp_jason_reseq	-0.24	-0.024
low_pH_jason_reseq	1.166	-0.37
NO_jason_reseq	0.021	-0.06
B6_jason_reseq	0.145	0.47
MHCII_jason_reseq	0.051	0.448
Isoniazid02	-2.865	-1.929
Rifampicin4	0.463	0.625
Ethambutol3	-2.36	-2.151
Meropenem3	-1.973	-0.361
Vancomycin16	-0.87	-0.907
Rv2680_day32	0.067	0.071
H37Rv_KO_MarP	0.838	0.409
hypoxia_3wks	-0.088	-0.395
hypoxia_6wks	0.069	-0.683
glycerol	-0.685	-0.176
cholesterol	-0.847	-0.111
AJ	-0.087	0.424
Bibs02	1.325	0.283
Bibs02c	0.887	0.57
BL6	-0.542	-0.065
BL6a	0.97	0.716
BXD01	-0.037	-0.167
BXD010	0.502	0.178
BXD011	0.229	0.436
BXD03	-0.423	0.247
BXD04	0.935	0.221
BXD05	0.21	0.692
BXD06	0.759	0.452
BXD07	0.147	0.158
BXD08	0.452	0.253
BXD09	0.37	0.623
CAST	-0.721	0.439
CCcont	-0.626	0.151
DS01	1.073	0.862
DS02	0.176	0.285
DS04	0.333	1.062
DS0c	-0.652	0.292
GP01	-1.547	0.304
GP02	-1.873	-0.484
GP0c	-2.341	-0.684
NOD	-1.103	0.539
NZO	-0.075	0.585
PWK	0.627	0.624
H37Rv_KO_CtpC	0.758	0.291
H37Rv_KO_CtpD	-1.788	0.08
H37Rv_KO_Rv1272	0.833	0.547
H37Rv_KO_SugABC	0.009	0.526
H37Rv_KO_MbtN	1.646	0.429
Trans05	0.314	0.094
macrophage_unactivated	0.455	-0.174
IL1	1.711	-0.047
Rapamycin	0.408	-0.169
Tcell	0.736	-0.606
GMCSF	1.201	0.013
IFNab	0.402	0.287
IFNg	0.861	0.102
IFNg_GMCSF1	1.562	0.33
Rv1432_day32	-0.597	0.316
Rv1565c_day32	-0.494	-0.591
secA2_input	-1.061	-0.632
delta_Rv3594	-0.722	-0.08
delta_Rv3717	-1.058	-0.216
delta_Rv3811	-1.419	0.025
delta_Rv0954	-1.026	-0.26
PonA1	-0.372	0.123
EccD1_KO	-0.891	-0.217
EspI_KO	-0.499	0.371
PE35_KO	-1.234	0.082
PPE68_KO	-1.789	-0.189
glycerol2	-0.056	-0.113
lignocerate	-0.761	0.516
oleate	0.926	-0.413
phosphatidylcholine	0.459	0.084
acetate	0.281	0.57
glucAc	-2.954	0.485
Rv0950ko	-1.306	0.109
Rv1096ko	-0.464	0.38
Rv3684ko	0.481	0.301
delta_otsA_trehalose	-0.053	-0.138