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 Rv2424c/-:

update plot	correlation	link to info on gene
Rv1367c/-	(cc=0.5961)	info on Rv1367c/-
Rv3055/-	(cc=0.5948)	info on Rv3055/-
Rv2786c/ribF	(cc=0.5633)	info on Rv2786c/ribF
Rv2177c/-	(cc=0.5495)	info on Rv2177c/-
Rv1250/-	(cc=0.5155)	info on Rv1250/-
Rv2980/-	(cc=0.5125)	info on Rv2980/-
Rv0520/-	(cc=0.5123)	info on Rv0520/-
Rv2915c/-	(cc=0.5113)	info on Rv2915c/-
Rv0895/-	(cc=0.5109)	info on Rv0895/-
Rv1735c/-	(cc=0.5061)	info on Rv1735c/-

Correlation of Rv2424c/- with Rv3055/-

Normalized LFCs for Rv2424c/-:
(description and provenance of datasets)

	Rv2424c/-	Rv3055/-
Fe_supp_jason_reseq	-0.701	-0.038
low_pH_jason_reseq	-1.082	-1.819
NO_jason_reseq	0.349	-1.748
B6_jason_reseq	0.996	-0.069
MHCII_jason_reseq	-0.668	-0.203
Isoniazid02	-0.18	0.0
Rifampicin4	0.875	0.306
Ethambutol3	0.573	0.95
Meropenem3	0.659	1.065
Vancomycin16	0.645	0.554
Rv2680_day32	0.043	0.761
H37Rv_KO_MarP	0.676	0.354
hypoxia_3wks	-0.167	-0.347
hypoxia_6wks	0.121	-1.042
glycerol	-1.287	-0.515
cholesterol	-0.457	-1.488
AJ	0.913	0.042
Bibs02	-0.148	-0.523
Bibs02c	0.196	-0.703
BL6	0.455	-0.993
BL6a	-0.29	-0.894
BXD01	-0.276	-0.426
BXD010	-0.559	-1.402
BXD011	-0.513	-0.563
BXD03	-0.213	-0.923
BXD04	0.063	0.632
BXD05	-0.628	-0.967
BXD06	-0.469	-1.168
BXD07	-0.288	-0.913
BXD08	-0.209	-1.242
BXD09	-0.242	-1.333
CAST	0.295	0.123
CCcont	-1.203	-0.225
DS01	0.33	-0.958
DS02	0.775	-1.966
DS04	0.864	0.298
DS0c	0.412	0.013
GP01	0.121	0.765
GP02	0.333	2.108
GP0c	0.623	1.447
NOD	0.413	-0.718
NZO	0.909	-0.571
PWK	0.645	-0.692
H37Rv_KO_CtpC	-0.184	-1.75
H37Rv_KO_CtpD	-0.777	-0.895
H37Rv_KO_Rv1272	-0.222	-1.317
H37Rv_KO_SugABC	-0.344	-0.799
H37Rv_KO_MbtN	-1.569	-0.993
Trans05	1.084	-1.181
macrophage_unactivated	-0.407	0.593
IL1	-1.1	-0.528
Rapamycin	-0.93	0.052
Tcell	-0.479	-0.58
GMCSF	0.098	0.613
IFNab	-0.937	-1.088
IFNg	-0.69	-2.248
IFNg_GMCSF1	0.148	0.817
Rv1432_day32	-0.03	-1.304
Rv1565c_day32	0.215	0.147
secA2_input	0.941	1.935
delta_Rv3594	-0.72	-1.837
delta_Rv3717	-0.865	-1.419
delta_Rv3811	-0.769	-1.404
delta_Rv0954	-1.039	-1.24
PonA1	-0.256	-0.39
EccD1_KO	2.559	2.911
EspI_KO	1.657	1.517
PE35_KO	1.173	2.214
PPE68_KO	1.654	3.443
glycerol2	0.184	1.407
lignocerate	0.183	0.838
oleate	0.604	0.502
phosphatidylcholine	0.794	1.241
acetate	0.357	0.083
glucAc	-0.149	0.164
Rv0950ko	-0.069	-0.727
Rv1096ko	-0.187	1.716
Rv3684ko	-0.334	0.252
delta_otsA_trehalose	-0.098	-0.491