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 Rv1318c/-:

update plot	correlation	link to info on gene
Rv3655c/-	(cc=0.6782)	info on Rv3655c/-
Rv2771c/-	(cc=0.5668)	info on Rv2771c/-
Rv2994/-	(cc=0.5048)	info on Rv2994/-
Rv0597c/-	(cc=0.5011)	info on Rv0597c/-
Rv1975/-	(cc=0.4885)	info on Rv1975/-
Rv0372c/-	(cc=0.4816)	info on Rv0372c/-
Rv0203/-	(cc=0.4686)	info on Rv0203/-
Rv0447c/ufaA1	(cc=0.4625)	info on Rv0447c/ufaA1
Rv2484c/-	(cc=0.4611)	info on Rv2484c/-
Rv3714c/-	(cc=0.4427)	info on Rv3714c/-

Correlation of Rv1318c/- with Rv2484c/-

Normalized LFCs for Rv1318c/-:
(description and provenance of datasets)

	Rv1318c/-	Rv2484c/-
Fe_supp_jason_reseq	0.455	-0.219
low_pH_jason_reseq	-0.39	-0.897
NO_jason_reseq	-0.328	0.488
B6_jason_reseq	0.078	0.555
MHCII_jason_reseq	0.344	0.566
Isoniazid02	0.14	1.072
Rifampicin4	0.839	-0.46
Ethambutol3	1.351	2.559
Meropenem3	0.077	0.424
Vancomycin16	0.395	0.207
Rv2680_day32	-0.489	-0.358
H37Rv_KO_MarP	0.262	0.093
hypoxia_3wks	0.191	-0.044
hypoxia_6wks	0.209	0.069
glycerol	-0.453	-0.298
cholesterol	-0.103	0.171
AJ	-0.212	0.218
Bibs02	0.412	-0.244
Bibs02c	0.039	-0.279
BL6	-0.335	-0.58
BL6a	-0.174	-0.689
BXD01	-0.317	-0.744
BXD010	0.178	-0.494
BXD011	0.21	-0.565
BXD03	-0.021	-0.374
BXD04	-0.453	0.471
BXD05	-0.016	-0.1
BXD06	-0.392	-0.579
BXD07	0.261	0.172
BXD08	-0.094	-0.063
BXD09	-0.011	-0.413
CAST	0.087	0.217
CCcont	-0.899	-1.236
DS01	0.496	-0.245
DS02	-0.145	-0.51
DS04	0.218	0.444
DS0c	-0.085	-0.116
GP01	0.472	-0.972
GP02	-0.571	0.48
GP0c	-0.103	-0.899
NOD	0.457	-0.044
NZO	-0.182	-0.325
PWK	-0.254	0.266
H37Rv_KO_CtpC	0.337	-0.966
H37Rv_KO_CtpD	0.703	-0.601
H37Rv_KO_Rv1272	-0.635	-0.683
H37Rv_KO_SugABC	-0.507	-0.192
H37Rv_KO_MbtN	-0.502	-1.086
Trans05	-0.514	-0.689
macrophage_unactivated	-0.502	-1.332
IL1	-0.181	-0.457
Rapamycin	-0.015	-0.657
Tcell	-0.59	-0.697
GMCSF	0.066	-1.077
IFNab	-0.281	-0.538
IFNg	0.182	-0.056
IFNg_GMCSF1	0.506	-0.635
Rv1432_day32	0.671	0.392
Rv1565c_day32	-0.438	-0.256
secA2_input	-0.067	0.232
delta_Rv3594	-0.046	-0.288
delta_Rv3717	-0.498	-0.237
delta_Rv3811	0.375	-0.706
delta_Rv0954	-0.443	0.37
PonA1	-0.557	-0.171
EccD1_KO	-0.204	0.878
EspI_KO	-0.2	0.06
PE35_KO	0.0	1.476
PPE68_KO	-0.378	1.427
glycerol2	-0.775	-1.687
lignocerate	-0.744	-0.616
oleate	-0.264	1.212
phosphatidylcholine	-0.399	-0.053
acetate	-0.796	-1.257
glucAc	-0.962	-2.19
Rv0950ko	1.116	0.38
Rv1096ko	0.676	1.152
Rv3684ko	0.976	1.867
delta_otsA_trehalose	-0.243	-0.16