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 Rv1041c/-:

update plot	correlation	link to info on gene
Rv1042c/-	(cc=0.6823)	info on Rv1042c/-
Rv2232/ptkA	(cc=0.6808)	info on Rv2232/ptkA
Rv0515/-	(cc=0.6248)	info on Rv0515/-
Rv1735c/-	(cc=0.6173)	info on Rv1735c/-
Rv1864c/-	(cc=0.616)	info on Rv1864c/-
Rv0849/-	(cc=0.614)	info on Rv0849/-
Rv2559c/-	(cc=0.6039)	info on Rv2559c/-
Rv1180/pks3	(cc=0.5915)	info on Rv1180/pks3
Rv1149/-	(cc=0.5896)	info on Rv1149/-
Rv0578c/PE_PGRS7	(cc=0.5845)	info on Rv0578c/PE_PGRS7

Correlation of Rv1041c/- with Rv1042c/-

Normalized LFCs for Rv1041c/-:
(description and provenance of datasets)

	Rv1041c/-	Rv1042c/-
Fe_supp_jason_reseq	-0.717	-1.46
low_pH_jason_reseq	-0.604	-1.064
NO_jason_reseq	0.034	-0.78
B6_jason_reseq	0.426	0.796
MHCII_jason_reseq	0.427	0.763
Isoniazid02	-0.191	0.451
Rifampicin4	0.555	1.914
Ethambutol3	-0.009	0.814
Meropenem3	0.246	0.994
Vancomycin16	0.077	1.292
Rv2680_day32	0.092	-0.571
H37Rv_KO_MarP	0.443	-0.032
hypoxia_3wks	0.463	1.049
hypoxia_6wks	0.388	1.33
glycerol	0.301	0.168
cholesterol	0.111	0.131
AJ	0.467	0.734
Bibs02	-0.025	0.372
Bibs02c	0.878	1.84
BL6	-0.511	-0.98
BL6a	0.209	1.413
BXD01	-0.127	-0.009
BXD010	-0.277	0.413
BXD011	-0.311	-0.323
BXD03	-0.22	0.618
BXD04	-0.262	-0.744
BXD05	-0.019	0.39
BXD06	-0.157	0.075
BXD07	-0.602	0.171
BXD08	-0.325	-0.8
BXD09	-0.392	0.32
CAST	0.317	0.692
CCcont	-0.997	-1.018
DS01	0.424	1.09
DS02	0.282	0.922
DS04	0.419	0.188
DS0c	0.229	0.592
GP01	-0.156	-2.405
GP02	-0.086	-0.64
GP0c	-1.031	-0.317
NOD	0.901	1.866
NZO	-0.337	0.058
PWK	0.601	0.915
H37Rv_KO_CtpC	1.289	3.218
H37Rv_KO_CtpD	0.169	1.339
H37Rv_KO_Rv1272	-0.104	0.01
H37Rv_KO_SugABC	-0.259	-1.494
H37Rv_KO_MbtN	0.018	0.877
Trans05	-0.006	0.698
macrophage_unactivated	-1.048	-1.932
IL1	-0.833	-0.033
Rapamycin	-1.117	0.034
Tcell	-0.916	-0.551
GMCSF	-0.462	-0.383
IFNab	-0.973	-0.692
IFNg	-1.328	-1.187
IFNg_GMCSF1	-0.267	-0.962
Rv1432_day32	0.232	0.868
Rv1565c_day32	0.319	0.485
secA2_input	0.402	1.481
delta_Rv3594	-0.48	0.239
delta_Rv3717	-0.269	1.402
delta_Rv3811	-0.613	0.824
delta_Rv0954	-0.112	0.899
PonA1	-0.196	-0.431
EccD1_KO	0.618	1.095
EspI_KO	0.559	1.315
PE35_KO	0.648	1.423
PPE68_KO	0.429	1.689
glycerol2	-0.13	-0.495
lignocerate	-0.354	-0.631
oleate	0.25	-0.038
phosphatidylcholine	0.01	-0.242
acetate	-0.218	0.0
glucAc	-0.478	0.082
Rv0950ko	0.353	0.597
Rv1096ko	0.48	1.252
Rv3684ko	-0.062	-0.239
delta_otsA_trehalose	0.558	-1.073