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 Rv1367c/-:

update plot	correlation	link to info on gene
Rv3354/-	(cc=0.6705)	info on Rv3354/-
Rv3056/dinP	(cc=0.6547)	info on Rv3056/dinP
Rv2559c/-	(cc=0.646)	info on Rv2559c/-
Rv2424c/-	(cc=0.5961)	info on Rv2424c/-
Rv1089/PE10	(cc=0.5889)	info on Rv1089/PE10
Rv1070c/echA8	(cc=0.5883)	info on Rv1070c/echA8
Rv2633c/-	(cc=0.5814)	info on Rv2633c/-
Rv1735c/-	(cc=0.5791)	info on Rv1735c/-
Rv3295/-	(cc=0.5766)	info on Rv3295/-
Rv0428c/-	(cc=0.5674)	info on Rv0428c/-

Correlation of Rv1367c/- with Rv2424c/-

Normalized LFCs for Rv1367c/-:
(description and provenance of datasets)

	Rv1367c/-	Rv2424c/-
Fe_supp_jason_reseq	-0.668	-0.701
low_pH_jason_reseq	-0.621	-1.082
NO_jason_reseq	0.102	0.349
B6_jason_reseq	0.32	0.996
MHCII_jason_reseq	0.499	-0.668
Isoniazid02	0.322	-0.18
Rifampicin4	0.574	0.875
Ethambutol3	1.446	0.573
Meropenem3	0.0	0.659
Vancomycin16	0.265	0.645
Rv2680_day32	-0.364	0.043
H37Rv_KO_MarP	0.176	0.676
hypoxia_3wks	0.136	-0.167
hypoxia_6wks	-0.438	0.121
glycerol	-0.073	-1.287
cholesterol	-0.132	-0.457
AJ	-0.314	0.913
Bibs02	-0.845	-0.148
Bibs02c	-0.4	0.196
BL6	-1.556	0.455
BL6a	-0.476	-0.29
BXD01	-0.868	-0.276
BXD010	-0.751	-0.559
BXD011	-0.447	-0.513
BXD03	-1.169	-0.213
BXD04	-0.891	0.063
BXD05	-0.533	-0.628
BXD06	-0.746	-0.469
BXD07	-0.944	-0.288
BXD08	-0.416	-0.209
BXD09	-1.607	-0.242
CAST	-0.624	0.295
CCcont	-1.029	-1.203
DS01	-0.156	0.33
DS02	-0.044	0.775
DS04	-0.094	0.864
DS0c	0.035	0.412
GP01	-0.481	0.121
GP02	0.1	0.333
GP0c	-0.119	0.623
NOD	0.026	0.413
NZO	0.329	0.909
PWK	-0.655	0.645
H37Rv_KO_CtpC	0.075	-0.184
H37Rv_KO_CtpD	-0.046	-0.777
H37Rv_KO_Rv1272	-0.075	-0.222
H37Rv_KO_SugABC	-0.189	-0.344
H37Rv_KO_MbtN	-1.426	-1.569
Trans05	0.417	1.084
macrophage_unactivated	-0.789	-0.407
IL1	-0.875	-1.1
Rapamycin	-1.154	-0.93
Tcell	-1.225	-0.479
GMCSF	-0.929	0.098
IFNab	-1.433	-0.937
IFNg	-1.443	-0.69
IFNg_GMCSF1	-0.619	0.148
Rv1432_day32	-0.593	-0.03
Rv1565c_day32	0.485	0.215
secA2_input	0.842	0.941
delta_Rv3594	-1.069	-0.72
delta_Rv3717	-0.668	-0.865
delta_Rv3811	-0.625	-0.769
delta_Rv0954	-0.756	-1.039
PonA1	-1.04	-0.256
EccD1_KO	0.599	2.559
EspI_KO	0.345	1.657
PE35_KO	0.554	1.173
PPE68_KO	0.211	1.654
glycerol2	0.448	0.184
lignocerate	-0.057	0.183
oleate	0.595	0.604
phosphatidylcholine	0.682	0.794
acetate	-0.344	0.357
glucAc	0.346	-0.149
Rv0950ko	-0.081	-0.069
Rv1096ko	0.106	-0.187
Rv3684ko	0.085	-0.334
delta_otsA_trehalose	-0.511	-0.098