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 Rv3262/fbiB

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

	Rv2983/-	Rv3262/fbiB
Fe_supp_jason_reseq	0.218	0.598
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	3.152
Rifampicin4	2.142	1.018
Ethambutol3	1.249	0.457
Meropenem3	0.189	0.376
Vancomycin16	2.183	0.833
Rv2680_day32	0.0	0.359
H37Rv_KO_MarP	1.112	-0.55
hypoxia_3wks	-0.502	-0.77
hypoxia_6wks	-0.549	-1.13
glycerol	0.856	1.758
cholesterol	1.504	1.663
AJ	0.232	0.0
Bibs02	0.0	0.348
Bibs02c	0.209	0.0
BL6	0.0	0.0
BL6a	0.0	0.198
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.135
BXD04	0.0	0.0
BXD05	0.135	0.135
BXD06	0.133	0.366
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.14
CAST	0.0	0.23
CCcont	1.082	1.815
DS01	1.947	2.262
DS02	0.0	0.597
DS04	0.194	0.194
DS0c	0.596	1.204
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.225
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.0
H37Rv_KO_CtpD	0.127	0.348
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.099	0.189
H37Rv_KO_MbtN	0.0	0.362
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.436
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	1.339
secA2_input	-0.485	-1.05
delta_Rv3594	1.811	-0.225
delta_Rv3717	0.0	-1.201
delta_Rv3811	0.934	-0.143
delta_Rv0954	0.811	0.61
PonA1	1.367	0.955
EccD1_KO	-0.664	-0.753
EspI_KO	-1.243	-1.609
PE35_KO	1.52	0.89
PPE68_KO	1.667	0.864
glycerol2	-1.297	-1.178
lignocerate	-2.345	-2.242
oleate	-2.358	-2.61
phosphatidylcholine	-2.697	-2.755
acetate	-1.102	0.161
glucAc	-1.49	-0.587
Rv0950ko	-1.294	0.498
Rv1096ko	-0.256	1.348
Rv3684ko	-0.727	0.668
delta_otsA_trehalose	-0.111	0.595