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 Rv0789c/-:

update plot	correlation	link to info on gene
Rv1289/-	(cc=0.6574)	info on Rv1289/-
Rv1489A/-	(cc=0.6491)	info on Rv1489A/-
Rv2802c/-	(cc=0.6346)	info on Rv2802c/-
Rv2532c/-	(cc=0.6322)	info on Rv2532c/-
Rv2019/-	(cc=0.6029)	info on Rv2019/-
Rv0964c/-	(cc=0.5948)	info on Rv0964c/-
Rv3195/-	(cc=0.5915)	info on Rv3195/-
Rv2237/-	(cc=0.5911)	info on Rv2237/-
Rv1725c/-	(cc=0.5887)	info on Rv1725c/-
Rv1038c/esxJ	(cc=0.5839)	info on Rv1038c/esxJ

Correlation of Rv0789c/- with Rv2237/-

Normalized LFCs for Rv0789c/-:
(description and provenance of datasets)

	Rv0789c/-	Rv2237/-
Fe_supp_jason_reseq	-0.073	0.23
low_pH_jason_reseq	0.284	-0.676
NO_jason_reseq	-1.362	-0.302
B6_jason_reseq	-0.395	-0.548
MHCII_jason_reseq	0.449	0.053
Isoniazid02	-0.073	0.397
Rifampicin4	-0.815	-0.674
Ethambutol3	-0.519	-0.32
Meropenem3	-0.272	-0.231
Vancomycin16	-0.167	-0.064
Rv2680_day32	0.222	0.594
H37Rv_KO_MarP	-0.714	0.254
hypoxia_3wks	-1.328	-0.762
hypoxia_6wks	0.23	-0.814
glycerol	-0.873	0.12
cholesterol	-0.682	0.447
AJ	0.02	0.235
Bibs02	-0.699	0.013
Bibs02c	0.018	-0.52
BL6	-1.162	0.847
BL6a	-0.405	0.201
BXD01	-0.307	-0.443
BXD010	0.104	0.241
BXD011	-1.379	0.53
BXD03	-0.768	-0.725
BXD04	-0.667	-0.369
BXD05	-0.707	0.165
BXD06	-1.847	0.284
BXD07	-1.23	-0.399
BXD08	-0.68	-0.084
BXD09	-0.47	0.228
CAST	-0.332	-0.464
CCcont	-0.383	1.023
DS01	-0.021	0.399
DS02	-0.151	1.096
DS04	1.314	0.45
DS0c	0.141	0.129
GP01	-0.133	0.95
GP02	-1.1	-0.93
GP0c	0.0	0.356
NOD	-0.303	-0.371
NZO	1.224	0.35
PWK	-0.246	-0.625
H37Rv_KO_CtpC	0.412	-0.013
H37Rv_KO_CtpD	-1.97	-0.315
H37Rv_KO_Rv1272	0.069	-0.297
H37Rv_KO_SugABC	0.403	0.422
H37Rv_KO_MbtN	-1.769	0.656
Trans05	1.333	0.02
macrophage_unactivated	0.776	0.076
IL1	2.658	0.24
Rapamycin	-0.433	-0.11
Tcell	0.71	0.339
GMCSF	-1.125	-0.261
IFNab	0.744	0.0
IFNg	-0.091	0.644
IFNg_GMCSF1	1.279	0.628
Rv1432_day32	1.095	-0.01
Rv1565c_day32	0.344	-0.479
secA2_input	-0.434	0.252
delta_Rv3594	-0.889	1.153
delta_Rv3717	0.228	1.364
delta_Rv3811	-0.772	0.772
delta_Rv0954	-0.974	0.16
PonA1	-0.791	0.84
EccD1_KO	1.22	0.53
EspI_KO	0.499	0.91
PE35_KO	1.164	0.858
PPE68_KO	0.803	0.733
glycerol2	3.129	1.88
lignocerate	3.78	2.527
oleate	0.196	-1.276
phosphatidylcholine	2.994	2.426
acetate	3.712	2.72
glucAc	3.388	2.503
Rv0950ko	0.223	0.0
Rv1096ko	1.252	-0.078
Rv3684ko	0.658	-0.819
delta_otsA_trehalose	-1.059	-0.569