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 Rv1149/-:

update plot	correlation	link to info on gene
Rv1042c/-	(cc=0.8949)	info on Rv1042c/-
Rv1041c/-	(cc=0.5896)	info on Rv1041c/-
Rv1135c/PPE16	(cc=0.5268)	info on Rv1135c/PPE16
Rv2673/aftC	(cc=0.481)	info on Rv2673/aftC
Rv2270/lppN	(cc=0.4556)	info on Rv2270/lppN
Rv1773c/-	(cc=0.4541)	info on Rv1773c/-
Rv3392c/cmaA1	(cc=0.4458)	info on Rv3392c/cmaA1
Rv2811/-	(cc=0.4378)	info on Rv2811/-
Rv2854/-	(cc=0.4282)	info on Rv2854/-
Rv0817c/-	(cc=0.4256)	info on Rv0817c/-

Correlation of Rv1149/- with Rv1042c/-

Normalized LFCs for Rv1149/-:
(description and provenance of datasets)

	Rv1149/-	Rv1042c/-
Fe_supp_jason_reseq	-1.566	-1.46
low_pH_jason_reseq	-1.532	-1.064
NO_jason_reseq	-0.37	-0.78
B6_jason_reseq	0.532	0.796
MHCII_jason_reseq	0.553	0.763
Isoniazid02	0.048	0.451
Rifampicin4	1.235	1.914
Ethambutol3	0.495	0.814
Meropenem3	0.767	0.994
Vancomycin16	0.499	1.292
Rv2680_day32	-0.613	-0.571
H37Rv_KO_MarP	0.073	-0.032
hypoxia_3wks	1.236	1.049
hypoxia_6wks	1.347	1.33
glycerol	0.255	0.168
cholesterol	0.146	0.131
AJ	0.813	0.734
Bibs02	0.287	0.372
Bibs02c	1.363	1.84
BL6	-0.264	-0.98
BL6a	0.913	1.413
BXD01	0.281	-0.009
BXD010	0.804	0.413
BXD011	-0.142	-0.323
BXD03	0.807	0.618
BXD04	-0.546	-0.744
BXD05	0.505	0.39
BXD06	0.326	0.075
BXD07	0.399	0.171
BXD08	-0.707	-0.8
BXD09	0.493	0.32
CAST	0.232	0.692
CCcont	-0.865	-1.018
DS01	0.743	1.09
DS02	0.432	0.922
DS04	0.195	0.188
DS0c	0.03	0.592
GP01	-2.51	-2.405
GP02	-1.23	-0.64
GP0c	-0.676	-0.317
NOD	1.751	1.866
NZO	0.0	0.058
PWK	0.895	0.915
H37Rv_KO_CtpC	3.594	3.218
H37Rv_KO_CtpD	1.213	1.339
H37Rv_KO_Rv1272	0.01	0.01
H37Rv_KO_SugABC	-1.653	-1.494
H37Rv_KO_MbtN	0.607	0.877
Trans05	0.951	0.698
macrophage_unactivated	-0.432	-1.932
IL1	0.059	-0.033
Rapamycin	0.092	0.034
Tcell	0.254	-0.551
GMCSF	0.106	-0.383
IFNab	-0.184	-0.692
IFNg	-0.136	-1.187
IFNg_GMCSF1	-0.063	-0.962
Rv1432_day32	0.658	0.868
Rv1565c_day32	1.054	0.485
secA2_input	0.734	1.481
delta_Rv3594	0.165	0.239
delta_Rv3717	1.187	1.402
delta_Rv3811	0.745	0.824
delta_Rv0954	0.933	0.899
PonA1	-0.591	-0.431
EccD1_KO	1.885	1.095
EspI_KO	1.6	1.315
PE35_KO	1.671	1.423
PPE68_KO	2.451	1.689
glycerol2	-0.719	-0.495
lignocerate	-0.865	-0.631
oleate	-0.293	-0.038
phosphatidylcholine	-0.629	-0.242
acetate	-0.547	0.0
glucAc	-0.572	0.082
Rv0950ko	0.859	0.597
Rv1096ko	1.517	1.252
Rv3684ko	0.933	-0.239
delta_otsA_trehalose	-0.873	-1.073