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 Rv1990A/-:

update plot	correlation	link to info on gene
Rv2039c/-	(cc=0.5673)	info on Rv2039c/-
Rv2929/-	(cc=0.5487)	info on Rv2929/-
Rv0235c/-	(cc=0.5038)	info on Rv0235c/-
Rv1076/lipU	(cc=0.5025)	info on Rv1076/lipU
Rv0973c/accA2	(cc=0.4986)	info on Rv0973c/accA2
Rv2044c/-	(cc=0.4923)	info on Rv2044c/-
Rv2677c/hemY	(cc=0.4746)	info on Rv2677c/hemY
Rv3545c/cyp125	(cc=0.4737)	info on Rv3545c/cyp125
Rv2575/-	(cc=0.4711)	info on Rv2575/-
Rv1870c/-	(cc=0.4663)	info on Rv1870c/-

Correlation of Rv1990A/- with Rv2677c/hemY

Normalized LFCs for Rv1990A/-:
(description and provenance of datasets)

	Rv1990A/-	Rv2677c/hemY
Fe_supp_jason_reseq	0.0	-3.105
low_pH_jason_reseq	-0.664	-0.363
NO_jason_reseq	0.189	-0.89
B6_jason_reseq	-1.972	-2.335
MHCII_jason_reseq	-1.757	-2.056
Isoniazid02	3.843	5.986
Rifampicin4	0.344	-0.374
Ethambutol3	0.426	1.475
Meropenem3	-0.214	-0.55
Vancomycin16	0.109	-1.218
Rv2680_day32	-2.044	-0.289
H37Rv_KO_MarP	0.234	0.611
hypoxia_3wks	0.156	-1.005
hypoxia_6wks	-0.013	-1.161
glycerol	-0.524	-0.856
cholesterol	-1.205	-0.105
AJ	-0.718	-0.983
Bibs02	-3.247	-0.592
Bibs02c	-1.288	0.141
BL6	0.304	-0.53
BL6a	0.522	0.26
BXD01	1.7	0.248
BXD010	1.82	0.168
BXD011	0.735	-0.54
BXD03	0.678	0.258
BXD04	0.62	0.162
BXD05	1.24	-0.201
BXD06	0.582	0.469
BXD07	1.093	0.182
BXD08	0.602	0.467
BXD09	0.977	0.69
CAST	-0.415	-0.976
CCcont	0.528	-0.633
DS01	0.202	0.31
DS02	-0.729	-0.922
DS04	-1.876	-0.141
DS0c	0.198	0.413
GP01	-0.48	0.644
GP02	1.816	-0.269
GP0c	0.506	0.581
NOD	1.196	-0.727
NZO	-1.37	-0.465
PWK	-0.728	-0.831
H37Rv_KO_CtpC	1.267	2.143
H37Rv_KO_CtpD	-0.307	-0.41
H37Rv_KO_Rv1272	0.905	1.07
H37Rv_KO_SugABC	1.82	-0.42
H37Rv_KO_MbtN	-0.511	-0.154
Trans05	1.228	-0.305
macrophage_unactivated	1.701	2.326
IL1	0.383	0.658
Rapamycin	0.491	-0.252
Tcell	0.16	0.495
GMCSF	-0.417	-0.217
IFNab	0.076	1.255
IFNg	0.053	-1.253
IFNg_GMCSF1	-0.242	0.0
Rv1432_day32	0.18	0.0
Rv1565c_day32	0.0	0.673
secA2_input	1.014	0.568
delta_Rv3594	0.333	0.142
delta_Rv3717	0.313	0.0
delta_Rv3811	0.744	0.617
delta_Rv0954	-0.37	1.096
PonA1	-0.247	0.712
EccD1_KO	-0.312	-0.559
EspI_KO	-0.111	-0.234
PE35_KO	0.545	0.0
PPE68_KO	-0.797	-0.544
glycerol2	0.722	-0.689
lignocerate	0.781	-1.34
oleate	0.98	0.0
phosphatidylcholine	0.79	-0.753
acetate	0.617	-1.716
glucAc	0.333	-2.243
Rv0950ko	-0.054	-0.235
Rv1096ko	0.573	0.832
Rv3684ko	-0.16	1.66
delta_otsA_trehalose	0.07	-0.336