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 Rv3447c/eccC4:

update plot	correlation	link to info on gene
Rv2306A/-	(cc=0.5932)	info on Rv2306A/-
Rv3566c/nat	(cc=0.5868)	info on Rv3566c/nat
Rv1997/ctpF	(cc=0.5771)	info on Rv1997/ctpF
Rv0968/-	(cc=0.5768)	info on Rv0968/-
Rv1774/-	(cc=0.5737)	info on Rv1774/-
Rv2566/-	(cc=0.5727)	info on Rv2566/-
Rv1647/-	(cc=0.5565)	info on Rv1647/-
Rv2577/-	(cc=0.5295)	info on Rv2577/-
Rv0754/PE_PGRS11	(cc=0.5232)	info on Rv0754/PE_PGRS11
Rv1148c/-	(cc=0.5207)	info on Rv1148c/-

Correlation of Rv3447c/eccC4 with Rv1148c/-

Normalized LFCs for Rv3447c/eccC4:
(description and provenance of datasets)

	Rv3447c/eccC4	Rv1148c/-
Fe_supp_jason_reseq	0.377	-0.382
low_pH_jason_reseq	-0.102	0.241
NO_jason_reseq	-0.215	0.302
B6_jason_reseq	0.128	0.404
MHCII_jason_reseq	0.166	0.684
Isoniazid02	-2.02	-1.86
Rifampicin4	0.133	-0.422
Ethambutol3	-0.233	-1.462
Meropenem3	-1.743	-1.765
Vancomycin16	-0.841	-1.321
Rv2680_day32	0.24	0.029
H37Rv_KO_MarP	0.972	0.357
hypoxia_3wks	0.255	0.04
hypoxia_6wks	0.134	0.061
glycerol	-0.399	-0.771
cholesterol	-0.108	-0.533
AJ	0.264	0.751
Bibs02	0.499	-0.142
Bibs02c	-0.414	0.409
BL6	-0.443	-0.781
BL6a	-0.839	0.152
BXD01	-0.356	-0.755
BXD010	-1.181	-0.426
BXD011	-0.908	-0.398
BXD03	-0.623	-0.259
BXD04	0.28	-0.537
BXD05	-0.346	-0.062
BXD06	-0.718	-0.54
BXD07	-0.378	-0.611
BXD08	0.151	-0.47
BXD09	-1.141	-0.338
CAST	0.287	0.392
CCcont	-0.633	-1.578
DS01	0.164	0.046
DS02	-0.054	0.085
DS04	-0.623	0.72
DS0c	0.71	0.256
GP01	0.374	-0.269
GP02	1.007	-0.582
GP0c	-0.257	-0.645
NOD	-0.226	-0.225
NZO	0.117	0.526
PWK	0.023	0.342
H37Rv_KO_CtpC	0.019	0.277
H37Rv_KO_CtpD	-0.111	-0.184
H37Rv_KO_Rv1272	0.19	-0.7
H37Rv_KO_SugABC	0.415	-0.22
H37Rv_KO_MbtN	-0.051	-0.173
Trans05	-0.221	-0.159
macrophage_unactivated	-0.619	-0.748
IL1	-0.495	-0.113
Rapamycin	-0.601	-0.46
Tcell	-0.264	-0.665
GMCSF	0.203	0.024
IFNab	-0.686	-0.266
IFNg	-0.446	0.126
IFNg_GMCSF1	-0.082	0.116
Rv1432_day32	0.223	0.164
Rv1565c_day32	0.085	0.652
secA2_input	0.825	0.177
delta_Rv3594	-0.5	0.601
delta_Rv3717	-0.076	0.563
delta_Rv3811	0.057	0.552
delta_Rv0954	0.121	0.762
PonA1	-0.141	0.321
EccD1_KO	-0.214	0.576
EspI_KO	0.456	0.975
PE35_KO	0.411	0.28
PPE68_KO	0.451	1.062
glycerol2	0.538	-0.08
lignocerate	0.421	-0.348
oleate	0.35	0.213
phosphatidylcholine	0.346	0.108
acetate	0.12	-0.52
glucAc	0.074	-0.797
Rv0950ko	-0.431	-0.211
Rv1096ko	0.703	0.446
Rv3684ko	0.599	0.219
delta_otsA_trehalose	0.939	0.487