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 Rv2983/-:

update plot	correlation	link to info on gene
Rv3262/fbiB	(cc=0.7653)	info on Rv3262/fbiB
Rv1173/fbiC	(cc=0.745)	info on Rv1173/fbiC
Rv3624c/hpt	(cc=0.7214)	info on Rv3624c/hpt
Rv1324/-	(cc=0.7073)	info on Rv1324/-
Rv0860/fadB	(cc=0.6573)	info on Rv0860/fadB
Rv3228/-	(cc=0.63)	info on Rv3228/-
Rv2909c/rpsP	(cc=0.6228)	info on Rv2909c/rpsP
Rv0526/-	(cc=0.6198)	info on Rv0526/-
Rv3261/fbiA	(cc=0.6164)	info on Rv3261/fbiA
Rv1170/mshB	(cc=0.5863)	info on Rv1170/mshB

Correlation of Rv2983/- with Rv3228/-

Normalized LFCs for Rv2983/-:
(description and provenance of datasets)

	Rv2983/-	Rv3228/-
Fe_supp_jason_reseq	0.218	0.218
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.292	0.0
MHCII_jason_reseq	0.135	0.0
Isoniazid02	2.89	0.72
Rifampicin4	2.142	-0.574
Ethambutol3	1.249	1.745
Meropenem3	0.189	0.648
Vancomycin16	2.183	3.218
Rv2680_day32	0.0	-0.095
H37Rv_KO_MarP	1.112	2.111
hypoxia_3wks	-0.502	0.0
hypoxia_6wks	-0.549	0.0
glycerol	0.856	0.709
cholesterol	1.504	0.145
AJ	0.232	0.232
Bibs02	0.0	0.0
Bibs02c	0.209	0.0
BL6	0.0	0.0
BL6a	0.0	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.124
BXD05	0.135	0.0
BXD06	0.133	0.0
BXD07	0.0	0.0
BXD08	0.0	0.133
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	1.082	1.606
DS01	1.947	0.0
DS02	0.0	0.0
DS04	0.194	0.194
DS0c	0.596	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.127	0.241
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.099
H37Rv_KO_MbtN	0.0	0.103
Trans05	0.0	0.0
macrophage_unactivated	0.0	1.708
IL1	0.0	-0.409
Rapamycin	0.0	1.068
Tcell	0.0	0.411
GMCSF	0.0	0.333
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	-0.494
Rv1565c_day32	0.0	0.0
secA2_input	-0.485	1.841
delta_Rv3594	1.811	2.49
delta_Rv3717	0.0	1.995
delta_Rv3811	0.934	2.005
delta_Rv0954	0.811	0.917
PonA1	1.367	0.0
EccD1_KO	-0.664	0.0
EspI_KO	-1.243	1.292
PE35_KO	1.52	4.238
PPE68_KO	1.667	2.109
glycerol2	-1.297	-1.312
lignocerate	-2.345	-2.604
oleate	-2.358	-3.031
phosphatidylcholine	-2.697	-2.994
acetate	-1.102	0.106
glucAc	-1.49	0.0
Rv0950ko	-1.294	0.172
Rv1096ko	-0.256	-0.555
Rv3684ko	-0.727	0.701
delta_otsA_trehalose	-0.111	-0.096