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 Rv2806/-:

update plot	correlation	link to info on gene
Rv2231c/cobC	(cc=0.5281)	info on Rv2231c/cobC
Rv1996/-	(cc=0.5175)	info on Rv1996/-
Rv2774c/-	(cc=0.4999)	info on Rv2774c/-
Rv3178/-	(cc=0.4896)	info on Rv3178/-
Rv0049/-	(cc=0.4747)	info on Rv0049/-
Rv3338/-	(cc=0.4736)	info on Rv3338/-
Rv3392c/cmaA1	(cc=0.4722)	info on Rv3392c/cmaA1
Rv2639c/-	(cc=0.4656)	info on Rv2639c/-
Rv2653c/-	(cc=0.4653)	info on Rv2653c/-
Rv1753c/PPE24	(cc=0.4632)	info on Rv1753c/PPE24

Correlation of Rv2806/- with Rv2231c/cobC

Normalized LFCs for Rv2806/-:
(description and provenance of datasets)

	Rv2806/-	Rv2231c/cobC
Fe_supp_jason_reseq	-0.54	-0.463
low_pH_jason_reseq	-1.087	-0.1
NO_jason_reseq	-0.992	-0.079
B6_jason_reseq	-0.321	-1.435
MHCII_jason_reseq	0.315	-0.893
Isoniazid02	-0.589	-0.581
Rifampicin4	-0.495	0.133
Ethambutol3	-0.754	-0.158
Meropenem3	-0.621	-0.363
Vancomycin16	-0.045	-0.568
Rv2680_day32	-0.554	0.811
H37Rv_KO_MarP	0.023	-1.507
hypoxia_3wks	1.196	0.467
hypoxia_6wks	1.063	1.205
glycerol	0.513	0.162
cholesterol	-1.016	-0.264
AJ	1.407	-0.424
Bibs02	0.343	0.946
Bibs02c	-0.808	-0.182
BL6	-0.483	0.477
BL6a	-0.036	1.122
BXD01	1.022	1.214
BXD010	0.486	0.629
BXD011	0.584	1.498
BXD03	0.325	1.088
BXD04	0.308	2.739
BXD05	0.544	1.863
BXD06	0.394	1.947
BXD07	1.055	1.383
BXD08	0.866	2.292
BXD09	0.482	1.614
CAST	0.093	-0.791
CCcont	-0.766	1.202
DS01	0.135	0.0
DS02	0.947	-0.189
DS04	0.354	-0.453
DS0c	0.418	1.383
GP01	0.576	0.0
GP02	0.207	-0.286
GP0c	-0.269	-0.113
NOD	-0.449	-0.905
NZO	1.428	1.225
PWK	1.144	-0.171
H37Rv_KO_CtpC	0.84	0.571
H37Rv_KO_CtpD	-1.44	-0.591
H37Rv_KO_Rv1272	1.179	1.338
H37Rv_KO_SugABC	0.568	0.586
H37Rv_KO_MbtN	1.216	1.226
Trans05	1.05	1.536
macrophage_unactivated	0.237	1.922
IL1	-0.208	1.139
Rapamycin	0.307	1.669
Tcell	0.701	1.189
GMCSF	-0.586	1.014
IFNab	-0.435	0.683
IFNg	-0.094	0.82
IFNg_GMCSF1	-0.163	1.546
Rv1432_day32	0.733	-0.618
Rv1565c_day32	-0.539	-1.989
secA2_input	-0.218	-0.62
delta_Rv3594	2.226	2.709
delta_Rv3717	1.441	2.718
delta_Rv3811	2.28	2.314
delta_Rv0954	1.567	1.773
PonA1	0.925	1.506
EccD1_KO	0.0	0.201
EspI_KO	-0.026	-0.787
PE35_KO	0.42	0.265
PPE68_KO	0.637	0.099
glycerol2	0.205	0.0
lignocerate	-0.393	0.082
oleate	1.009	0.539
phosphatidylcholine	0.356	0.213
acetate	-0.735	-0.283
glucAc	-1.598	-0.405
Rv0950ko	0.516	0.395
Rv1096ko	-0.187	0.202
Rv3684ko	0.265	0.0
delta_otsA_trehalose	-0.492	0.58