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 Rv0057/-:

update plot	correlation	link to info on gene
Rv3711c/dnaQ	(cc=0.51)	info on Rv3711c/dnaQ
Rv3890c/esxC	(cc=0.4927)	info on Rv3890c/esxC
Rv2516c/-	(cc=0.478)	info on Rv2516c/-
Rv1112/-	(cc=0.4723)	info on Rv1112/-
Rv1435c/-	(cc=0.4436)	info on Rv1435c/-
Rv2927c/-	(cc=0.4324)	info on Rv2927c/-
Rv2373c/dnaJ2	(cc=0.4318)	info on Rv2373c/dnaJ2
Rv0364/-	(cc=0.424)	info on Rv0364/-
Rv3011c/gatA	(cc=0.4209)	info on Rv3011c/gatA
Rv0063/-	(cc=0.4173)	info on Rv0063/-

Correlation of Rv0057/- with Rv1112/-

Normalized LFCs for Rv0057/-:
(description and provenance of datasets)

	Rv0057/-	Rv1112/-
Fe_supp_jason_reseq	-0.033	1.901
low_pH_jason_reseq	-1.032	-1.571
NO_jason_reseq	-1.297	0.315
B6_jason_reseq	-0.873	-0.913
MHCII_jason_reseq	-0.572	0.0
Isoniazid02	-0.263	3.87
Rifampicin4	-1.819	0.712
Ethambutol3	-0.764	1.414
Meropenem3	-0.335	0.426
Vancomycin16	-0.565	1.602
Rv2680_day32	0.371	0.109
H37Rv_KO_MarP	0.301	2.428
hypoxia_3wks	-1.559	-2.68
hypoxia_6wks	-0.685	-2.533
glycerol	0.341	2.487
cholesterol	0.789	1.62
AJ	0.792	1.78
Bibs02	0.281	0.0
Bibs02c	1.699	0.0
BL6	-0.198	1.574
BL6a	1.507	1.964
BXD01	-0.416	1.496
BXD010	-0.258	1.739
BXD011	-0.376	0.612
BXD03	0.514	1.146
BXD04	0.19	1.588
BXD05	-0.646	1.241
BXD06	0.42	2.098
BXD07	-0.19	0.809
BXD08	0.024	1.227
BXD09	0.237	2.005
CAST	0.529	1.458
CCcont	0.548	4.277
DS01	1.235	0.551
DS02	0.466	0.35
DS04	0.17	1.32
DS0c	0.262	0.652
GP01	0.255	0.36
GP02	-0.789	-0.159
GP0c	-0.966	-0.248
NOD	1.709	2.071
NZO	0.627	1.357
PWK	1.722	0.715
H37Rv_KO_CtpC	0.059	0.0
H37Rv_KO_CtpD	-0.121	1.689
H37Rv_KO_Rv1272	0.799	0.753
H37Rv_KO_SugABC	0.12	1.666
H37Rv_KO_MbtN	-0.058	1.959
Trans05	-0.049	0.628
macrophage_unactivated	0.404	0.571
IL1	-0.78	-1.326
Rapamycin	-0.807	-0.307
Tcell	0.0	0.303
GMCSF	0.338	-0.85
IFNab	-0.248	0.795
IFNg	0.775	-1.563
IFNg_GMCSF1	-0.17	-0.647
Rv1432_day32	-0.485	1.155
Rv1565c_day32	-1.112	-0.256
secA2_input	-0.485	-0.676
delta_Rv3594	0.424	4.577
delta_Rv3717	0.871	4.406
delta_Rv3811	0.668	3.248
delta_Rv0954	0.826	0.969
PonA1	0.152	-0.245
EccD1_KO	-1.503	-1.542
EspI_KO	-0.841	-1.879
PE35_KO	-1.552	-0.548
PPE68_KO	-1.542	-0.902
glycerol2	0.105	0.395
lignocerate	0.15	-0.764
oleate	-1.021	-0.588
phosphatidylcholine	-0.398	-1.751
acetate	0.884	1.536
glucAc	0.923	2.08
Rv0950ko	0.498	0.862
Rv1096ko	0.781	0.398
Rv3684ko	0.0	0.829
delta_otsA_trehalose	-0.16	0.4