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 Rv0621/-

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

	Rv1075c/-	Rv0621/-
Fe_supp_jason_reseq	0.058	-0.942
low_pH_jason_reseq	-0.047	-1.062
NO_jason_reseq	0.37	0.105
B6_jason_reseq	0.761	-0.583
MHCII_jason_reseq	1.053	0.908
Isoniazid02	0.223	0.0
Rifampicin4	0.655	0.084
Ethambutol3	0.72	-0.057
Meropenem3	-0.019	0.565
Vancomycin16	-0.013	0.202
Rv2680_day32	0.547	-1.194
H37Rv_KO_MarP	-0.272	-0.432
hypoxia_3wks	0.0	-0.403
hypoxia_6wks	-0.027	0.269
glycerol	0.059	-0.154
cholesterol	0.005	-0.086
AJ	0.708	0.521
Bibs02	0.579	0.242
Bibs02c	0.621	0.656
BL6	0.098	-1.893
BL6a	0.168	-0.541
BXD01	-0.325	-1.372
BXD010	-0.301	-1.278
BXD011	0.236	-1.603
BXD03	-0.578	-0.951
BXD04	-0.563	-0.976
BXD05	0.092	-1.437
BXD06	-0.313	-2.02
BXD07	-0.532	-0.623
BXD08	-0.402	-1.46
BXD09	-0.432	-1.346
CAST	0.042	-0.137
CCcont	-0.414	-1.113
DS01	0.217	0.849
DS02	0.244	0.238
DS04	0.443	1.301
DS0c	0.475	0.663
GP01	-1.729	-2.326
GP02	-0.263	-0.402
GP0c	-0.827	-1.195
NOD	-0.129	0.265
NZO	-0.441	0.101
PWK	0.166	-0.496
H37Rv_KO_CtpC	-0.547	-0.227
H37Rv_KO_CtpD	-1.338	-1.508
H37Rv_KO_Rv1272	-0.365	0.702
H37Rv_KO_SugABC	-0.751	-1.747
H37Rv_KO_MbtN	0.507	0.088
Trans05	0.398	-0.035
macrophage_unactivated	0.455	0.044
IL1	-0.018	-0.311
Rapamycin	-0.107	-0.466
Tcell	-0.316	-1.166
GMCSF	-0.016	-0.116
IFNab	0.018	-0.707
IFNg	-0.259	0.115
IFNg_GMCSF1	0.198	0.974
Rv1432_day32	-0.669	0.707
Rv1565c_day32	-0.333	0.0
secA2_input	0.817	1.852
delta_Rv3594	1.462	1.288
delta_Rv3717	1.354	0.664
delta_Rv3811	1.286	0.581
delta_Rv0954	1.035	0.631
PonA1	0.925	0.885
EccD1_KO	0.497	0.73
EspI_KO	-0.288	0.756
PE35_KO	-0.158	0.773
PPE68_KO	0.275	0.71
glycerol2	-0.352	-0.249
lignocerate	-0.084	0.012
oleate	0.16	-0.091
phosphatidylcholine	-0.097	-0.266
acetate	-0.351	-0.522
glucAc	-0.716	-0.184
Rv0950ko	-0.286	0.736
Rv1096ko	0.024	0.645
Rv3684ko	-0.026	-0.115
delta_otsA_trehalose	-1.218	0.916