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 Rv0358/-:

update plot	correlation	link to info on gene
Rv3043c/ctaD	(cc=0.5167)	info on Rv3043c/ctaD
Rv1170/mshB	(cc=0.4778)	info on Rv1170/mshB
Rv3673c/-	(cc=0.4571)	info on Rv3673c/-
Rv1458c/-	(cc=0.4465)	info on Rv1458c/-
Rv0460/-	(cc=0.4363)	info on Rv0460/-
Rv3705c/-	(cc=0.4357)	info on Rv3705c/-
Rv1701/-	(cc=0.4338)	info on Rv1701/-
Rv0701/rplC	(cc=0.4287)	info on Rv0701/rplC
Rv3489/-	(cc=0.4133)	info on Rv3489/-
Rv2373c/dnaJ2	(cc=0.4132)	info on Rv2373c/dnaJ2

Correlation of Rv0358/- with Rv3043c/ctaD

Normalized LFCs for Rv0358/-:
(description and provenance of datasets)

	Rv0358/-	Rv3043c/ctaD
Fe_supp_jason_reseq	0.199	0.598
low_pH_jason_reseq	0.211	0.0
NO_jason_reseq	0.914	0.69
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	-0.135	0.0
Isoniazid02	1.948	-0.383
Rifampicin4	0.222	0.311
Ethambutol3	0.0	0.14
Meropenem3	-0.603	-0.315
Vancomycin16	-0.231	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.756	0.423
hypoxia_3wks	0.0	0.0
hypoxia_6wks	-0.288	0.0
glycerol	0.184	0.202
cholesterol	0.979	0.0
AJ	0.0	0.0
Bibs02	-0.183	0.0
Bibs02c	-0.209	0.0
BL6	-0.125	0.238
BL6a	0.346	0.0
BXD01	0.119	0.13
BXD010	0.0	0.0
BXD011	0.116	0.0
BXD03	0.438	0.0
BXD04	0.0	0.0
BXD05	-0.135	0.0
BXD06	0.432	0.0
BXD07	0.126	0.0
BXD08	0.232	0.133
BXD09	0.245	0.14
CAST	-0.23	0.0
CCcont	0.679	0.525
DS01	0.0	0.236
DS02	-0.217	0.0
DS04	0.628	0.0
DS0c	-0.217	0.0
GP01	-0.099	0.0
GP02	0.0	0.0
GP0c	-0.13	0.0
NOD	-0.225	0.0
NZO	0.0	0.199
PWK	-0.196	0.0
H37Rv_KO_CtpC	-0.162	0.0
H37Rv_KO_CtpD	2.392	0.703
H37Rv_KO_Rv1272	0.457	0.0
H37Rv_KO_SugABC	-0.099	0.189
H37Rv_KO_MbtN	0.26	0.103
Trans05	0.0	0.0
macrophage_unactivated	0.436	0.0
IL1	1.124	0.0
Rapamycin	1.488	0.0
Tcell	0.0	0.45
GMCSF	1.001	0.0
IFNab	0.795	0.0
IFNg	0.369	0.0
IFNg_GMCSF1	0.826	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	1.403	0.0
secA2_input	1.223	1.694
delta_Rv3594	-0.444	-0.402
delta_Rv3717	-0.468	-0.331
delta_Rv3811	-0.205	-0.187
delta_Rv0954	0.578	0.0
PonA1	-0.245	0.851
EccD1_KO	-2.424	-0.73
EspI_KO	-0.588	-0.633
PE35_KO	-0.443	-0.648
PPE68_KO	-0.841	-0.71
glycerol2	-0.531	-0.82
lignocerate	-0.14	-0.712
oleate	-0.537	-0.829
phosphatidylcholine	-0.338	-0.626
acetate	-0.63	-0.535
glucAc	0.0	-0.103
Rv0950ko	-0.534	0.0
Rv1096ko	-0.727	-0.347
Rv3684ko	-0.58	-0.377
delta_otsA_trehalose	-0.133	-0.103