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 Rv2303c/-:

update plot	correlation	link to info on gene
Rv2881c/cdsA	(cc=0.549)	info on Rv2881c/cdsA
Rv3184/-	(cc=0.5372)	info on Rv3184/-
Rv1673c/-	(cc=0.5317)	info on Rv1673c/-
Rv2576c/-	(cc=0.5087)	info on Rv2576c/-
Rv1215c/-	(cc=0.5001)	info on Rv1215c/-
Rv2278/-	(cc=0.4905)	info on Rv2278/-
Rv1369c/-	(cc=0.4873)	info on Rv1369c/-
Rv3533c/PPE62	(cc=0.4837)	info on Rv3533c/PPE62
Rv3884c/eccA2	(cc=0.4774)	info on Rv3884c/eccA2
Rv1756c/-	(cc=0.4652)	info on Rv1756c/-

Correlation of Rv2303c/- with Rv1673c/-

Normalized LFCs for Rv2303c/-:
(description and provenance of datasets)

	Rv2303c/-	Rv1673c/-
Fe_supp_jason_reseq	-0.186	-0.065
low_pH_jason_reseq	0.269	-0.494
NO_jason_reseq	0.0	-0.255
B6_jason_reseq	0.047	-1.081
MHCII_jason_reseq	0.088	-0.123
Isoniazid02	0.111	0.041
Rifampicin4	-0.195	0.038
Ethambutol3	0.507	-0.4
Meropenem3	0.864	0.307
Vancomycin16	0.0	0.0
Rv2680_day32	0.163	1.117
H37Rv_KO_MarP	0.134	0.237
hypoxia_3wks	0.439	0.622
hypoxia_6wks	0.23	0.791
glycerol	0.452	0.063
cholesterol	0.196	0.067
AJ	0.355	1.324
Bibs02	-0.176	0.592
Bibs02c	-0.056	0.159
BL6	0.37	-0.654
BL6a	0.076	0.524
BXD01	0.184	-0.085
BXD010	0.136	0.529
BXD011	0.401	0.806
BXD03	-0.036	0.422
BXD04	0.896	-0.68
BXD05	0.786	0.817
BXD06	0.447	0.417
BXD07	0.476	-0.138
BXD08	0.101	0.564
BXD09	0.215	0.044
CAST	0.245	0.851
CCcont	0.019	-0.072
DS01	0.121	-0.541
DS02	-0.306	-0.293
DS04	0.394	0.259
DS0c	0.014	-0.141
GP01	0.242	1.252
GP02	0.977	-0.657
GP0c	0.067	0.823
NOD	0.74	0.421
NZO	0.977	1.413
PWK	0.429	0.494
H37Rv_KO_CtpC	0.768	1.405
H37Rv_KO_CtpD	0.523	1.885
H37Rv_KO_Rv1272	0.563	0.301
H37Rv_KO_SugABC	0.293	-0.749
H37Rv_KO_MbtN	0.825	0.884
Trans05	0.981	0.453
macrophage_unactivated	-0.638	-0.84
IL1	-0.839	-2.186
Rapamycin	0.114	-1.547
Tcell	0.391	-1.303
GMCSF	-0.401	-0.607
IFNab	-0.587	-1.932
IFNg	-0.596	-1.585
IFNg_GMCSF1	-0.544	-1.515
Rv1432_day32	0.27	-0.416
Rv1565c_day32	-0.178	1.185
secA2_input	-0.088	-0.573
delta_Rv3594	0.543	-0.439
delta_Rv3717	-0.115	-0.123
delta_Rv3811	-0.497	-0.827
delta_Rv0954	-0.512	-0.833
PonA1	0.495	0.41
EccD1_KO	1.243	0.914
EspI_KO	0.924	0.841
PE35_KO	0.613	2.071
PPE68_KO	0.56	2.643
glycerol2	-0.167	-0.853
lignocerate	-0.46	-0.51
oleate	-0.139	-0.142
phosphatidylcholine	-0.38	-0.332
acetate	-0.08	-0.166
glucAc	-0.328	-0.649
Rv0950ko	0.066	0.0
Rv1096ko	-0.718	0.356
Rv3684ko	0.026	-0.822
delta_otsA_trehalose	0.098	-0.892