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 Rv2576c/-

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

	Rv2303c/-	Rv2576c/-
Fe_supp_jason_reseq	-0.186	0.33
low_pH_jason_reseq	0.269	0.159
NO_jason_reseq	0.0	0.357
B6_jason_reseq	0.047	-0.223
MHCII_jason_reseq	0.088	0.481
Isoniazid02	0.111	0.276
Rifampicin4	-0.195	-0.615
Ethambutol3	0.507	-0.213
Meropenem3	0.864	0.037
Vancomycin16	0.0	0.34
Rv2680_day32	0.163	-0.201
H37Rv_KO_MarP	0.134	0.223
hypoxia_3wks	0.439	0.782
hypoxia_6wks	0.23	0.305
glycerol	0.452	0.513
cholesterol	0.196	-0.269
AJ	0.355	-0.624
Bibs02	-0.176	0.845
Bibs02c	-0.056	0.473
BL6	0.37	-0.766
BL6a	0.076	0.099
BXD01	0.184	0.428
BXD010	0.136	-0.019
BXD011	0.401	0.0
BXD03	-0.036	-0.945
BXD04	0.896	-0.032
BXD05	0.786	0.492
BXD06	0.447	-0.264
BXD07	0.476	-0.088
BXD08	0.101	-0.041
BXD09	0.215	0.138
CAST	0.245	-0.843
CCcont	0.019	-0.558
DS01	0.121	0.233
DS02	-0.306	-0.35
DS04	0.394	1.046
DS0c	0.014	-0.47
GP01	0.242	0.86
GP02	0.977	1.853
GP0c	0.067	0.66
NOD	0.74	-0.083
NZO	0.977	-0.182
PWK	0.429	-0.125
H37Rv_KO_CtpC	0.768	0.686
H37Rv_KO_CtpD	0.523	-0.54
H37Rv_KO_Rv1272	0.563	0.86
H37Rv_KO_SugABC	0.293	0.303
H37Rv_KO_MbtN	0.825	-0.16
Trans05	0.981	1.217
macrophage_unactivated	-0.638	-0.319
IL1	-0.839	-0.919
Rapamycin	0.114	0.209
Tcell	0.391	0.264
GMCSF	-0.401	0.18
IFNab	-0.587	-0.514
IFNg	-0.596	-0.476
IFNg_GMCSF1	-0.544	-0.635
Rv1432_day32	0.27	-0.671
Rv1565c_day32	-0.178	0.092
secA2_input	-0.088	-0.178
delta_Rv3594	0.543	0.248
delta_Rv3717	-0.115	0.109
delta_Rv3811	-0.497	0.381
delta_Rv0954	-0.512	-0.933
PonA1	0.495	0.77
EccD1_KO	1.243	1.246
EspI_KO	0.924	1.417
PE35_KO	0.613	0.846
PPE68_KO	0.56	0.646
glycerol2	-0.167	-0.275
lignocerate	-0.46	-0.268
oleate	-0.139	-0.19
phosphatidylcholine	-0.38	0.043
acetate	-0.08	-1.237
glucAc	-0.328	-0.968
Rv0950ko	0.066	0.437
Rv1096ko	-0.718	-0.326
Rv3684ko	0.026	0.131
delta_otsA_trehalose	0.098	-0.688