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 Rv0540/-:

update plot	correlation	link to info on gene
Rv1734c/-	(cc=0.6055)	info on Rv1734c/-
Rv0228/-	(cc=0.5973)	info on Rv0228/-
Rv2917/-	(cc=0.5972)	info on Rv2917/-
Rv0359/-	(cc=0.5969)	info on Rv0359/-
Rv1864c/-	(cc=0.5914)	info on Rv1864c/-
Rv2232/ptkA	(cc=0.5783)	info on Rv2232/ptkA
Rv0428c/-	(cc=0.5733)	info on Rv0428c/-
Rv1894c/-	(cc=0.5729)	info on Rv1894c/-
Rv2826c/-	(cc=0.5725)	info on Rv2826c/-
Rv1041c/-	(cc=0.5669)	info on Rv1041c/-

Correlation of Rv0540/- with Rv1734c/-

Normalized LFCs for Rv0540/-:
(description and provenance of datasets)

	Rv0540/-	Rv1734c/-
Fe_supp_jason_reseq	-0.074	-0.758
low_pH_jason_reseq	-1.096	-1.522
NO_jason_reseq	-0.312	0.189
B6_jason_reseq	0.833	0.334
MHCII_jason_reseq	-0.506	0.931
Isoniazid02	0.038	0.07
Rifampicin4	0.07	-0.972
Ethambutol3	0.122	-0.362
Meropenem3	0.504	-0.186
Vancomycin16	2.406	-0.791
Rv2680_day32	-0.833	0.413
H37Rv_KO_MarP	-1.228	-0.143
hypoxia_3wks	0.443	0.052
hypoxia_6wks	-0.526	0.629
glycerol	-0.278	-1.717
cholesterol	0.973	-0.385
AJ	-0.424	-0.637
Bibs02	0.532	0.18
Bibs02c	1.634	-0.115
BL6	-2.735	-5.025
BL6a	0.796	-1.475
BXD01	-1.446	-1.484
BXD010	-2.013	-1.162
BXD011	-0.05	-1.613
BXD03	-2.821	-2.441
BXD04	-2.096	-3.083
BXD05	-0.796	-3.861
BXD06	-1.093	-2.192
BXD07	-1.76	-2.899
BXD08	-1.75	-3.815
BXD09	-1.849	-2.746
CAST	-0.606	-0.148
CCcont	-2.263	-3.255
DS01	0.866	0.659
DS02	-1.286	0.408
DS04	-0.937	0.481
DS0c	1.09	0.424
GP01	-1.97	-0.855
GP02	-0.781	-1.086
GP0c	-0.893	-2.222
NOD	0.719	-0.272
NZO	-0.558	-0.8
PWK	0.239	0.074
H37Rv_KO_CtpC	-1.285	-1.159
H37Rv_KO_CtpD	-2.232	-4.643
H37Rv_KO_Rv1272	-0.194	-0.903
H37Rv_KO_SugABC	-0.4	0.39
H37Rv_KO_MbtN	-0.379	-0.286
Trans05	-0.2	-0.229
macrophage_unactivated	-2.743	-4.564
IL1	-2.394	-6.0
Rapamycin	-2.667	-5.291
Tcell	-0.723	-2.727
GMCSF	-0.805	-4.668
IFNab	-3.459	-4.831
IFNg	-2.157	-6.0
IFNg_GMCSF1	-1.678	-2.485
Rv1432_day32	0.0	0.421
Rv1565c_day32	-0.725	-0.199
secA2_input	-0.302	-5.268
delta_Rv3594	-0.515	2.268
delta_Rv3717	-0.052	1.881
delta_Rv3811	-0.355	2.17
delta_Rv0954	-0.876	1.354
PonA1	-0.574	2.964
EccD1_KO	-0.645	-0.664
EspI_KO	0.288	-2.98
PE35_KO	-0.403	-1.19
PPE68_KO	-0.627	-1.699
glycerol2	-0.263	-0.336
lignocerate	-0.8	-0.566
oleate	0.343	0.34
phosphatidylcholine	0.049	-0.227
acetate	-0.79	-0.01
glucAc	-1.772	-1.467
Rv0950ko	0.0	0.519
Rv1096ko	1.221	0.642
Rv3684ko	0.485	-0.115
delta_otsA_trehalose	-0.422	0.443