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 Rv2972c/-:

update plot	correlation	link to info on gene
Rv2126c/PE_PGRS37	(cc=0.5261)	info on Rv2126c/PE_PGRS37
Rv1935c/echA13	(cc=0.5006)	info on Rv1935c/echA13
Rv1558/-	(cc=0.4966)	info on Rv1558/-
Rv1869c/-	(cc=0.4548)	info on Rv1869c/-
Rv2877c/-	(cc=0.42)	info on Rv2877c/-
Rv3095/-	(cc=0.3937)	info on Rv3095/-
Rv1959c/parE1	(cc=0.3913)	info on Rv1959c/parE1
Rv1108c/xseA	(cc=0.3722)	info on Rv1108c/xseA
Rv3230c/-	(cc=0.37)	info on Rv3230c/-
Rv3079c/-	(cc=0.3668)	info on Rv3079c/-

Correlation of Rv2972c/- with Rv2126c/PE_PGRS37

Normalized LFCs for Rv2972c/-:
(description and provenance of datasets)

	Rv2972c/-	Rv2126c/PE_PGRS37
Fe_supp_jason_reseq	0.723	0.257
low_pH_jason_reseq	-0.95	-0.065
NO_jason_reseq	0.179	-0.722
B6_jason_reseq	0.577	0.766
MHCII_jason_reseq	0.422	0.501
Isoniazid02	-0.019	0.781
Rifampicin4	-0.195	0.853
Ethambutol3	0.655	3.067
Meropenem3	1.458	1.497
Vancomycin16	0.464	0.799
Rv2680_day32	0.901	1.032
H37Rv_KO_MarP	0.432	-0.168
hypoxia_3wks	-0.734	-0.494
hypoxia_6wks	-0.23	-0.829
glycerol	-1.128	-0.186
cholesterol	-0.347	-0.961
AJ	0.469	0.615
Bibs02	-0.016	0.64
Bibs02c	-0.653	0.997
BL6	0.362	-0.048
BL6a	-0.009	0.913
BXD01	0.071	1.015
BXD010	0.286	-0.391
BXD011	0.729	1.425
BXD03	-0.316	-0.482
BXD04	-0.122	1.608
BXD05	0.495	0.507
BXD06	0.187	0.699
BXD07	-0.018	0.693
BXD08	0.586	0.98
BXD09	0.361	0.359
CAST	-0.43	-1.268
CCcont	-0.22	-0.48
DS01	0.099	-0.457
DS02	0.019	-0.083
DS04	0.228	0.814
DS0c	0.126	-0.42
GP01	-0.85	-1.837
GP02	0.36	-0.065
GP0c	-0.429	-0.636
NOD	0.076	-0.27
NZO	0.617	0.282
PWK	0.389	-0.35
H37Rv_KO_CtpC	0.134	-0.195
H37Rv_KO_CtpD	0.124	-0.84
H37Rv_KO_Rv1272	-1.257	-0.776
H37Rv_KO_SugABC	0.56	0.966
H37Rv_KO_MbtN	0.483	1.055
Trans05	-0.371	-0.836
macrophage_unactivated	0.189	-0.41
IL1	0.513	1.071
Rapamycin	1.228	0.896
Tcell	0.098	0.606
GMCSF	0.502	0.824
IFNab	0.916	0.396
IFNg	0.783	0.468
IFNg_GMCSF1	1.241	0.688
Rv1432_day32	-0.259	0.284
Rv1565c_day32	-1.259	-0.93
secA2_input	0.23	0.792
delta_Rv3594	-0.057	-0.87
delta_Rv3717	0.464	-0.614
delta_Rv3811	0.623	-0.226
delta_Rv0954	-0.019	-1.244
PonA1	-0.008	-1.028
EccD1_KO	0.158	-0.497
EspI_KO	0.781	0.2
PE35_KO	0.446	-0.213
PPE68_KO	0.154	-0.077
glycerol2	0.289	0.349
lignocerate	0.175	0.026
oleate	0.934	1.404
phosphatidylcholine	0.354	0.514
acetate	-0.672	-0.256
glucAc	-0.652	-0.394
Rv0950ko	-0.1	-0.66
Rv1096ko	-0.256	-0.917
Rv3684ko	0.331	-1.294
delta_otsA_trehalose	1.505	0.657