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 Rv1422/-:

update plot	correlation	link to info on gene
Rv3919c/gid	(cc=0.5365)	info on Rv3919c/gid
Rv1079/metB	(cc=0.5169)	info on Rv1079/metB
Rv2978c/-	(cc=0.5113)	info on Rv2978c/-
Rv1633/uvrB	(cc=0.4985)	info on Rv1633/uvrB
Rv3841/bfrB	(cc=0.498)	info on Rv3841/bfrB
Rv2366c/-	(cc=0.4953)	info on Rv2366c/-
Rv0653c/-	(cc=0.4941)	info on Rv0653c/-
Rv2734/-	(cc=0.4927)	info on Rv2734/-
Rv0150c/-	(cc=0.4792)	info on Rv0150c/-
Rv0956/purN	(cc=0.4749)	info on Rv0956/purN

Correlation of Rv1422/- with Rv0956/purN

Normalized LFCs for Rv1422/-:
(description and provenance of datasets)

	Rv1422/-	Rv0956/purN
Fe_supp_jason_reseq	1.358	-0.573
low_pH_jason_reseq	-0.234	0.793
NO_jason_reseq	0.068	-0.446
B6_jason_reseq	-1.947	-0.788
MHCII_jason_reseq	-1.4	-0.829
Isoniazid02	-0.579	0.0
Rifampicin4	0.138	0.311
Ethambutol3	0.753	0.981
Meropenem3	-0.383	0.138
Vancomycin16	-1.61	0.854
Rv2680_day32	-0.19	-0.672
H37Rv_KO_MarP	2.572	1.411
hypoxia_3wks	-2.237	-1.049
hypoxia_6wks	-1.8	-0.549
glycerol	-2.06	0.0
cholesterol	-0.114	0.398
AJ	-1.262	0.0
Bibs02	-1.191	0.0
Bibs02c	-0.233	0.209
BL6	1.148	1.479
BL6a	0.199	0.839
BXD01	0.852	1.134
BXD010	1.191	0.0
BXD011	-0.186	0.127
BXD03	0.191	0.0
BXD04	0.518	0.124
BXD05	1.044	0.827
BXD06	1.083	0.741
BXD07	0.961	0.929
BXD08	0.636	1.217
BXD09	0.617	0.494
CAST	-0.546	0.0
CCcont	0.531	1.082
DS01	0.0	0.0
DS02	-1.676	0.0
DS04	-1.32	0.37
DS0c	-1.413	0.0
GP01	1.051	1.2
GP02	0.406	0.603
GP0c	1.159	2.738
NOD	-1.956	0.0
NZO	-0.757	0.0
PWK	-0.465	0.831
H37Rv_KO_CtpC	0.525	0.162
H37Rv_KO_CtpD	0.276	0.778
H37Rv_KO_Rv1272	0.218	0.0
H37Rv_KO_SugABC	-0.293	2.14
H37Rv_KO_MbtN	0.959	1.183
Trans05	-0.386	0.554
macrophage_unactivated	-0.578	0.0
IL1	-1.163	-0.409
Rapamycin	-0.632	-0.424
Tcell	-0.485	0.411
GMCSF	0.356	-0.364
IFNab	-0.03	0.0
IFNg	-0.428	0.337
IFNg_GMCSF1	-0.097	0.0
Rv1432_day32	-0.039	0.0
Rv1565c_day32	-2.854	-0.415
secA2_input	-0.762	1.711
delta_Rv3594	2.034	1.637
delta_Rv3717	1.443	1.933
delta_Rv3811	1.377	1.008
delta_Rv0954	1.081	0.933
PonA1	-1.154	-0.851
EccD1_KO	2.625	0.0
EspI_KO	0.918	0.633
PE35_KO	1.488	0.0
PPE68_KO	1.561	0.368
glycerol2	0.191	-0.193
lignocerate	-3.01	0.0
oleate	-1.591	-0.196
phosphatidylcholine	-3.013	0.0
acetate	0.043	0.0
glucAc	-0.38	0.649
Rv0950ko	0.488	0.347
Rv1096ko	-0.217	1.999
Rv3684ko	0.033	0.727
delta_otsA_trehalose	1.62	0.133