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 Rv0971c/echA7:

update plot	correlation	link to info on gene
Rv1020/mfd	(cc=0.6365)	info on Rv1020/mfd
Rv0844c/narL	(cc=0.618)	info on Rv0844c/narL
Rv3210c/-	(cc=0.5775)	info on Rv3210c/-
Rv2545/vapB18	(cc=0.5649)	info on Rv2545/vapB18
Rv1787/PPE25	(cc=0.5609)	info on Rv1787/PPE25
Rv1051c/-	(cc=0.5574)	info on Rv1051c/-
Rv2161c/-	(cc=0.5443)	info on Rv2161c/-
Rv0742/PE_PGRS8	(cc=0.5395)	info on Rv0742/PE_PGRS8
Rv1994c/cmtR	(cc=0.5331)	info on Rv1994c/cmtR
Rv0222/echA1	(cc=0.5292)	info on Rv0222/echA1

Correlation of Rv0971c/echA7 with Rv1020/mfd

Normalized LFCs for Rv0971c/echA7:
(description and provenance of datasets)

	Rv0971c/echA7	Rv1020/mfd
Fe_supp_jason_reseq	-0.535	-0.436
low_pH_jason_reseq	-1.877	-0.097
NO_jason_reseq	0.297	-0.221
B6_jason_reseq	-2.077	-0.783
MHCII_jason_reseq	-1.582	-1.525
Isoniazid02	0.243	0.124
Rifampicin4	1.308	-0.079
Ethambutol3	1.133	0.984
Meropenem3	0.879	0.317
Vancomycin16	0.117	0.615
Rv2680_day32	-0.022	-0.635
H37Rv_KO_MarP	0.378	0.128
hypoxia_3wks	-0.694	-1.416
hypoxia_6wks	-0.867	-1.305
glycerol	1.375	0.794
cholesterol	0.372	0.514
AJ	0.299	-0.188
Bibs02	0.29	0.401
Bibs02c	-0.186	0.243
BL6	1.067	1.214
BL6a	1.085	0.639
BXD01	0.483	0.377
BXD010	1.122	0.247
BXD011	0.698	0.805
BXD03	1.026	0.716
BXD04	0.531	0.613
BXD05	1.583	0.182
BXD06	0.447	0.967
BXD07	1.171	0.341
BXD08	1.757	1.15
BXD09	1.271	0.418
CAST	0.561	0.486
CCcont	1.056	1.37
DS01	0.34	-0.248
DS02	0.934	-0.454
DS04	2.478	1.248
DS0c	-0.591	-0.201
GP01	0.185	0.878
GP02	1.92	0.976
GP0c	2.155	0.689
NOD	-0.875	-0.659
NZO	-0.932	-0.527
PWK	0.53	-0.067
H37Rv_KO_CtpC	1.818	1.15
H37Rv_KO_CtpD	2.045	0.232
H37Rv_KO_Rv1272	1.674	0.177
H37Rv_KO_SugABC	2.493	0.583
H37Rv_KO_MbtN	0.871	0.263
Trans05	1.229	0.367
macrophage_unactivated	0.641	-0.47
IL1	0.982	0.219
Rapamycin	1.169	0.252
Tcell	-0.179	0.029
GMCSF	0.298	-0.42
IFNab	0.707	0.46
IFNg	0.166	-0.289
IFNg_GMCSF1	0.71	0.173
Rv1432_day32	0.595	-0.545
Rv1565c_day32	-0.847	-0.123
secA2_input	0.92	0.776
delta_Rv3594	-0.902	-0.431
delta_Rv3717	-0.526	-0.184
delta_Rv3811	-0.815	-0.543
delta_Rv0954	-0.508	-0.058
PonA1	-1.144	0.525
EccD1_KO	0.0	0.145
EspI_KO	1.298	0.479
PE35_KO	-0.044	0.053
PPE68_KO	-1.638	0.195
glycerol2	0.116	-0.069
lignocerate	0.613	0.212
oleate	-0.688	-0.242
phosphatidylcholine	0.332	-0.153
acetate	0.712	0.57
glucAc	0.885	0.361
Rv0950ko	0.476	0.678
Rv1096ko	1.158	0.742
Rv3684ko	1.867	0.593
delta_otsA_trehalose	0.768	-0.604