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 Rv2690c/-:

update plot	correlation	link to info on gene
Rv3200c/-	(cc=0.5603)	info on Rv3200c/-
Rv2983/-	(cc=0.5018)	info on Rv2983/-
Rv3490/otsA	(cc=0.4802)	info on Rv3490/otsA
Rv2397c/cysA1	(cc=0.4793)	info on Rv2397c/cysA1
Rv1324/-	(cc=0.478)	info on Rv1324/-
Rv2256c/-	(cc=0.4574)	info on Rv2256c/-
Rv2837c/-	(cc=0.4454)	info on Rv2837c/-
Rv2785c/rpsO	(cc=0.4444)	info on Rv2785c/rpsO
Rv1340/rphA	(cc=0.4438)	info on Rv1340/rphA
Rv0541c/-	(cc=0.4309)	info on Rv0541c/-

Correlation of Rv2690c/- with Rv3200c/-

Normalized LFCs for Rv2690c/-:
(description and provenance of datasets)

	Rv2690c/-	Rv3200c/-
Fe_supp_jason_reseq	0.0	2.104
low_pH_jason_reseq	0.0	0.811
NO_jason_reseq	0.0	-3.108
B6_jason_reseq	0.0	-0.929
MHCII_jason_reseq	0.0	-0.818
Isoniazid02	0.437	0.627
Rifampicin4	1.681	2.226
Ethambutol3	0.251	0.123
Meropenem3	0.562	-0.144
Vancomycin16	2.502	2.069
Rv2680_day32	-0.249	-1.066
H37Rv_KO_MarP	-1.317	-2.822
hypoxia_3wks	0.0	0.794
hypoxia_6wks	0.0	2.998
glycerol	0.0	-0.633
cholesterol	1.663	2.534
AJ	0.0	-0.728
Bibs02	0.0	0.703
Bibs02c	0.0	0.505
BL6	0.0	-0.684
BL6a	0.0	0.595
BXD01	0.0	-0.478
BXD010	0.0	-0.543
BXD011	0.0	-0.05
BXD03	0.0	0.284
BXD04	0.0	-0.048
BXD05	0.0	-0.354
BXD06	0.0	0.05
BXD07	0.0	-0.054
BXD08	0.0	-0.488
BXD09	0.0	-0.769
CAST	0.0	-0.976
CCcont	0.285	1.552
DS01	0.0	1.665
DS02	0.0	0.717
DS04	0.533	1.903
DS0c	0.0	0.652
GP01	0.0	0.38
GP02	0.0	-0.455
GP0c	0.0	0.049
NOD	0.0	-1.38
NZO	0.0	-1.691
PWK	0.0	-0.158
H37Rv_KO_CtpC	0.162	0.75
H37Rv_KO_CtpD	0.0	0.52
H37Rv_KO_Rv1272	0.0	1.294
H37Rv_KO_SugABC	1.783	1.711
H37Rv_KO_MbtN	0.283	2.884
Trans05	0.0	0.274
macrophage_unactivated	0.0	1.812
IL1	0.0	-0.836
Rapamycin	0.0	-0.522
Tcell	0.0	2.463
GMCSF	0.0	-0.264
IFNab	0.0	1.735
IFNg	0.0	-0.754
IFNg_GMCSF1	0.0	-1.141
Rv1432_day32	0.0	-2.154
Rv1565c_day32	0.0	2.159
secA2_input	-0.916	-3.604
delta_Rv3594	1.086	2.236
delta_Rv3717	0.563	2.162
delta_Rv3811	1.282	2.229
delta_Rv0954	0.311	0.336
PonA1	0.145	0.0
EccD1_KO	-0.678	-1.161
EspI_KO	-0.918	-0.031
PE35_KO	0.767	0.825
PPE68_KO	0.298	0.176
glycerol2	0.0	0.13
lignocerate	0.0	-0.122
oleate	0.0	0.784
phosphatidylcholine	0.0	-0.289
acetate	0.0	0.155
glucAc	0.0	-0.213
Rv0950ko	-1.251	-0.507
Rv1096ko	0.262	1.936
Rv3684ko	-0.982	-0.242
delta_otsA_trehalose	-0.014	-0.346