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 Rv1075c/-:

update plot	correlation	link to info on gene
Rv1291c/-	(cc=0.599)	info on Rv1291c/-
Rv3170/aofH	(cc=0.5511)	info on Rv3170/aofH
Rv2328/PE23	(cc=0.5508)	info on Rv2328/PE23
Rv2854/-	(cc=0.5395)	info on Rv2854/-
Rv1638A/-	(cc=0.5265)	info on Rv1638A/-
Rv0791c/-	(cc=0.5256)	info on Rv0791c/-
Rv0848/cysK2	(cc=0.5214)	info on Rv0848/cysK2
Rv0621/-	(cc=0.5182)	info on Rv0621/-
Rv3431c/-	(cc=0.5139)	info on Rv3431c/-
Rv2013/-	(cc=0.4982)	info on Rv2013/-

Correlation of Rv1075c/- with Rv2013/-

Normalized LFCs for Rv1075c/-:
(description and provenance of datasets)

	Rv1075c/-	Rv2013/-
Fe_supp_jason_reseq	0.058	-0.947
low_pH_jason_reseq	-0.047	-1.166
NO_jason_reseq	0.37	0.73
B6_jason_reseq	0.761	-1.289
MHCII_jason_reseq	1.053	0.059
Isoniazid02	0.223	4.388
Rifampicin4	0.655	-1.102
Ethambutol3	0.72	3.976
Meropenem3	-0.019	-1.109
Vancomycin16	-0.013	-0.82
Rv2680_day32	0.547	-0.698
H37Rv_KO_MarP	-0.272	-1.599
hypoxia_3wks	0.0	0.459
hypoxia_6wks	-0.027	1.013
glycerol	0.059	1.246
cholesterol	0.005	-0.155
AJ	0.708	0.279
Bibs02	0.579	0.695
Bibs02c	0.621	2.99
BL6	0.098	-1.845
BL6a	0.168	-0.717
BXD01	-0.325	-0.729
BXD010	-0.301	-1.645
BXD011	0.236	-1.096
BXD03	-0.578	0.034
BXD04	-0.563	-0.747
BXD05	0.092	-1.729
BXD06	-0.313	-1.149
BXD07	-0.532	-0.404
BXD08	-0.402	0.506
BXD09	-0.432	-0.787
CAST	0.042	1.034
CCcont	-0.414	-2.053
DS01	0.217	-0.941
DS02	0.244	0.262
DS04	0.443	0.632
DS0c	0.475	-0.424
GP01	-1.729	-1.456
GP02	-0.263	-1.227
GP0c	-0.827	-1.918
NOD	-0.129	-1.357
NZO	-0.441	-1.032
PWK	0.166	-0.641
H37Rv_KO_CtpC	-0.547	-0.91
H37Rv_KO_CtpD	-1.338	-1.868
H37Rv_KO_Rv1272	-0.365	-2.08
H37Rv_KO_SugABC	-0.751	0.073
H37Rv_KO_MbtN	0.507	2.325
Trans05	0.398	-1.927
macrophage_unactivated	0.455	2.172
IL1	-0.018	3.085
Rapamycin	-0.107	4.155
Tcell	-0.316	2.401
GMCSF	-0.016	-0.958
IFNab	0.018	2.899
IFNg	-0.259	0.406
IFNg_GMCSF1	0.198	1.112
Rv1432_day32	-0.669	0.0
Rv1565c_day32	-0.333	-0.463
secA2_input	0.817	5.737
delta_Rv3594	1.462	4.958
delta_Rv3717	1.354	2.388
delta_Rv3811	1.286	2.543
delta_Rv0954	1.035	3.1
PonA1	0.925	2.345
EccD1_KO	0.497	1.227
EspI_KO	-0.288	-2.165
PE35_KO	-0.158	-0.618
PPE68_KO	0.275	-0.214
glycerol2	-0.352	-1.136
lignocerate	-0.084	-1.566
oleate	0.16	0.081
phosphatidylcholine	-0.097	-0.749
acetate	-0.351	-2.138
glucAc	-0.716	-3.434
Rv0950ko	-0.286	1.016
Rv1096ko	0.024	2.901
Rv3684ko	-0.026	-0.524
delta_otsA_trehalose	-1.218	1.783