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 Rv2041c/-:

update plot	correlation	link to info on gene
Rv3249c/-	(cc=0.5414)	info on Rv3249c/-
Rv1739c/-	(cc=0.4817)	info on Rv1739c/-
Rv2389c/rpfD	(cc=0.4743)	info on Rv2389c/rpfD
Rv2955c/-	(cc=0.4663)	info on Rv2955c/-
Rv1869c/-	(cc=0.4468)	info on Rv1869c/-
Rv2270/lppN	(cc=0.4334)	info on Rv2270/lppN
Rv2367c/-	(cc=0.4299)	info on Rv2367c/-
Rv2629/-	(cc=0.4208)	info on Rv2629/-
Rv2417c/-	(cc=0.4162)	info on Rv2417c/-
Rv2293c/-	(cc=0.4093)	info on Rv2293c/-

Correlation of Rv2041c/- with Rv2367c/-

Normalized LFCs for Rv2041c/-:
(description and provenance of datasets)

	Rv2041c/-	Rv2367c/-
Fe_supp_jason_reseq	-0.942	-1.653
low_pH_jason_reseq	1.092	-0.311
NO_jason_reseq	-0.318	-0.06
B6_jason_reseq	-0.376	-1.244
MHCII_jason_reseq	0.141	-0.082
Isoniazid02	0.188	0.437
Rifampicin4	-0.16	0.357
Ethambutol3	0.178	0.161
Meropenem3	2.337	1.198
Vancomycin16	0.05	0.419
Rv2680_day32	-0.593	0.035
H37Rv_KO_MarP	0.611	-0.131
hypoxia_3wks	-0.06	-0.379
hypoxia_6wks	0.157	0.72
glycerol	0.0	-0.616
cholesterol	-0.132	0.211
AJ	0.56	0.78
Bibs02	-0.109	0.303
Bibs02c	-0.191	-0.103
BL6	0.481	0.073
BL6a	0.093	-0.227
BXD01	-0.712	-1.32
BXD010	0.896	-0.497
BXD011	-0.063	-0.29
BXD03	0.101	-0.573
BXD04	0.425	-0.882
BXD05	0.935	-0.227
BXD06	0.05	0.314
BXD07	0.04	-0.514
BXD08	-0.417	-0.516
BXD09	-0.069	0.066
CAST	-0.309	-0.934
CCcont	-0.014	-0.092
DS01	-0.477	-0.501
DS02	-0.572	-1.043
DS04	-0.347	-1.337
DS0c	-0.709	-0.162
GP01	-1.43	-0.727
GP02	-1.661	-1.472
GP0c	-1.019	-0.439
NOD	0.923	0.529
NZO	-0.059	0.205
PWK	-0.284	0.462
H37Rv_KO_CtpC	-0.785	-0.47
H37Rv_KO_CtpD	0.755	-2.086
H37Rv_KO_Rv1272	0.18	-0.759
H37Rv_KO_SugABC	0.135	0.28
H37Rv_KO_MbtN	-0.467	-1.697
Trans05	-0.344	0.149
macrophage_unactivated	0.754	-1.869
IL1	0.086	0.255
Rapamycin	-0.031	0.046
Tcell	-0.427	-0.453
GMCSF	0.364	-0.541
IFNab	-0.209	-0.52
IFNg	0.0	0.339
IFNg_GMCSF1	0.751	-0.754
Rv1432_day32	-0.164	1.175
Rv1565c_day32	-0.862	-1.579
secA2_input	-1.501	-0.36
delta_Rv3594	0.021	-0.402
delta_Rv3717	-0.516	-1.044
delta_Rv3811	0.0	-0.772
delta_Rv0954	-1.31	-1.498
PonA1	-0.518	0.504
EccD1_KO	0.293	0.881
EspI_KO	0.887	0.992
PE35_KO	1.117	0.939
PPE68_KO	0.995	1.113
glycerol2	-0.849	-1.192
lignocerate	-0.818	-1.238
oleate	-0.211	-1.252
phosphatidylcholine	-0.594	-1.864
acetate	-0.705	-0.444
glucAc	-0.718	-0.365
Rv0950ko	0.274	0.256
Rv1096ko	0.048	-0.715
Rv3684ko	0.757	-1.127
delta_otsA_trehalose	0.691	-0.245