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 Rv1869c/-

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

	Rv2041c/-	Rv1869c/-
Fe_supp_jason_reseq	-0.942	0.013
low_pH_jason_reseq	1.092	-0.112
NO_jason_reseq	-0.318	0.27
B6_jason_reseq	-0.376	0.14
MHCII_jason_reseq	0.141	0.812
Isoniazid02	0.188	0.447
Rifampicin4	-0.16	-0.33
Ethambutol3	0.178	0.34
Meropenem3	2.337	1.387
Vancomycin16	0.05	0.066
Rv2680_day32	-0.593	0.525
H37Rv_KO_MarP	0.611	0.157
hypoxia_3wks	-0.06	0.0
hypoxia_6wks	0.157	0.443
glycerol	0.0	-0.661
cholesterol	-0.132	-0.725
AJ	0.56	0.449
Bibs02	-0.109	-0.029
Bibs02c	-0.191	0.32
BL6	0.481	-0.132
BL6a	0.093	0.518
BXD01	-0.712	-0.108
BXD010	0.896	0.397
BXD011	-0.063	0.444
BXD03	0.101	0.09
BXD04	0.425	0.172
BXD05	0.935	0.51
BXD06	0.05	0.141
BXD07	0.04	0.237
BXD08	-0.417	0.417
BXD09	-0.069	0.379
CAST	-0.309	0.33
CCcont	-0.014	-0.267
DS01	-0.477	0.339
DS02	-0.572	0.282
DS04	-0.347	0.159
DS0c	-0.709	0.046
GP01	-1.43	-0.117
GP02	-1.661	-0.103
GP0c	-1.019	-0.618
NOD	0.923	-0.011
NZO	-0.059	0.42
PWK	-0.284	0.72
H37Rv_KO_CtpC	-0.785	-0.271
H37Rv_KO_CtpD	0.755	0.557
H37Rv_KO_Rv1272	0.18	0.475
H37Rv_KO_SugABC	0.135	0.357
H37Rv_KO_MbtN	-0.467	0.022
Trans05	-0.344	0.405
macrophage_unactivated	0.754	-0.786
IL1	0.086	-0.092
Rapamycin	-0.031	0.095
Tcell	-0.427	-0.837
GMCSF	0.364	-0.288
IFNab	-0.209	0.272
IFNg	0.0	-0.016
IFNg_GMCSF1	0.751	0.135
Rv1432_day32	-0.164	0.098
Rv1565c_day32	-0.862	-1.27
secA2_input	-1.501	-0.153
delta_Rv3594	0.021	0.541
delta_Rv3717	-0.516	0.023
delta_Rv3811	0.0	0.495
delta_Rv0954	-1.31	0.253
PonA1	-0.518	0.132
EccD1_KO	0.293	0.812
EspI_KO	0.887	0.796
PE35_KO	1.117	0.624
PPE68_KO	0.995	0.893
glycerol2	-0.849	-0.398
lignocerate	-0.818	-0.326
oleate	-0.211	-0.242
phosphatidylcholine	-0.594	-0.375
acetate	-0.705	-0.421
glucAc	-0.718	-0.648
Rv0950ko	0.274	-0.151
Rv1096ko	0.048	-0.609
Rv3684ko	0.757	-0.275
delta_otsA_trehalose	0.691	1.056