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 Rv2994/-

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

	Rv1318c/-	Rv2994/-
Fe_supp_jason_reseq	0.455	-0.358
low_pH_jason_reseq	-0.39	-0.865
NO_jason_reseq	-0.328	-0.074
B6_jason_reseq	0.078	0.503
MHCII_jason_reseq	0.344	0.585
Isoniazid02	0.14	0.192
Rifampicin4	0.839	0.72
Ethambutol3	1.351	0.413
Meropenem3	0.077	0.207
Vancomycin16	0.395	0.531
Rv2680_day32	-0.489	-0.56
H37Rv_KO_MarP	0.262	0.099
hypoxia_3wks	0.191	0.335
hypoxia_6wks	0.209	0.695
glycerol	-0.453	-0.278
cholesterol	-0.103	-0.106
AJ	-0.212	0.131
Bibs02	0.412	-0.012
Bibs02c	0.039	0.45
BL6	-0.335	0.603
BL6a	-0.174	0.363
BXD01	-0.317	-0.321
BXD010	0.178	-0.158
BXD011	0.21	0.293
BXD03	-0.021	-0.026
BXD04	-0.453	-0.42
BXD05	-0.016	0.398
BXD06	-0.392	0.009
BXD07	0.261	0.144
BXD08	-0.094	0.222
BXD09	-0.011	-0.009
CAST	0.087	0.143
CCcont	-0.899	-0.494
DS01	0.496	0.419
DS02	-0.145	-0.284
DS04	0.218	-0.142
DS0c	-0.085	0.5
GP01	0.472	0.516
GP02	-0.571	0.412
GP0c	-0.103	-0.141
NOD	0.457	0.208
NZO	-0.182	-0.16
PWK	-0.254	0.182
H37Rv_KO_CtpC	0.337	-0.064
H37Rv_KO_CtpD	0.703	-0.251
H37Rv_KO_Rv1272	-0.635	-0.968
H37Rv_KO_SugABC	-0.507	1.032
H37Rv_KO_MbtN	-0.502	-1.404
Trans05	-0.514	-0.209
macrophage_unactivated	-0.502	-0.445
IL1	-0.181	-0.047
Rapamycin	-0.015	-0.457
Tcell	-0.59	-0.782
GMCSF	0.066	0.821
IFNab	-0.281	-0.221
IFNg	0.182	-0.353
IFNg_GMCSF1	0.506	-0.415
Rv1432_day32	0.671	1.036
Rv1565c_day32	-0.438	0.294
secA2_input	-0.067	0.614
delta_Rv3594	-0.046	0.167
delta_Rv3717	-0.498	0.118
delta_Rv3811	0.375	-0.123
delta_Rv0954	-0.443	-0.021
PonA1	-0.557	-0.575
EccD1_KO	-0.204	-0.109
EspI_KO	-0.2	0.046
PE35_KO	0.0	-0.61
PPE68_KO	-0.378	-0.106
glycerol2	-0.775	-0.626
lignocerate	-0.744	-0.772
oleate	-0.264	-0.4
phosphatidylcholine	-0.399	-0.437
acetate	-0.796	-0.874
glucAc	-0.962	-1.191
Rv0950ko	1.116	0.048
Rv1096ko	0.676	0.832
Rv3684ko	0.976	0.452
delta_otsA_trehalose	-0.243	1.026