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 Rv0221/-:

update plot	correlation	link to info on gene
Rv0918/-	(cc=0.4923)	info on Rv0918/-
Rv0071/-	(cc=0.4739)	info on Rv0071/-
Rv2882c/frr	(cc=0.4731)	info on Rv2882c/frr
Rv2678c/hemE	(cc=0.4622)	info on Rv2678c/hemE
Rv3135/PPE50	(cc=0.4602)	info on Rv3135/PPE50
Rv3673c/-	(cc=0.455)	info on Rv3673c/-
Rv3858c/gltD	(cc=0.445)	info on Rv3858c/gltD
Rv3606c/folK	(cc=0.4331)	info on Rv3606c/folK
Rv3753c/-	(cc=0.4254)	info on Rv3753c/-
Rv3765c/tcrX	(cc=0.4185)	info on Rv3765c/tcrX

Correlation of Rv0221/- with Rv0071/-

Normalized LFCs for Rv0221/-:
(description and provenance of datasets)

	Rv0221/-	Rv0071/-
Fe_supp_jason_reseq	1.018	0.624
low_pH_jason_reseq	0.264	-0.139
NO_jason_reseq	-0.252	0.517
B6_jason_reseq	1.237	1.764
MHCII_jason_reseq	1.549	1.675
Isoniazid02	0.627	0.073
Rifampicin4	0.07	0.75
Ethambutol3	0.685	1.131
Meropenem3	0.208	0.694
Vancomycin16	0.239	0.218
Rv2680_day32	0.687	1.537
H37Rv_KO_MarP	0.524	0.059
hypoxia_3wks	0.195	-0.152
hypoxia_6wks	0.714	-0.182
glycerol	0.184	1.16
cholesterol	-0.282	1.207
AJ	-0.198	-0.504
Bibs02	0.025	0.474
Bibs02c	0.243	0.887
BL6	0.323	0.441
BL6a	0.382	-0.265
BXD01	-0.121	-0.919
BXD010	0.372	-0.781
BXD011	0.435	-0.745
BXD03	0.261	-1.044
BXD04	0.008	-0.664
BXD05	0.205	-0.091
BXD06	-0.066	-0.636
BXD07	0.065	-0.722
BXD08	0.33	-0.8
BXD09	0.341	-0.69
CAST	0.295	0.235
CCcont	0.173	-0.342
DS01	0.4	0.301
DS02	-0.17	0.767
DS04	0.963	0.51
DS0c	0.143	-0.093
GP01	-0.014	-2.601
GP02	-0.204	-2.703
GP0c	-0.848	-1.661
NOD	0.42	1.694
NZO	0.144	0.027
PWK	0.539	0.443
H37Rv_KO_CtpC	0.394	0.0
H37Rv_KO_CtpD	0.193	0.247
H37Rv_KO_Rv1272	0.129	-0.757
H37Rv_KO_SugABC	-0.504	-0.655
H37Rv_KO_MbtN	-0.057	-0.546
Trans05	-0.093	-0.911
macrophage_unactivated	-0.23	0.085
IL1	0.273	0.181
Rapamycin	0.325	0.779
Tcell	-0.026	-0.088
GMCSF	0.061	0.671
IFNab	-0.145	-0.366
IFNg	0.382	-0.171
IFNg_GMCSF1	0.072	0.776
Rv1432_day32	0.828	0.426
Rv1565c_day32	-0.344	1.978
secA2_input	-0.207	1.85
delta_Rv3594	-0.054	-0.136
delta_Rv3717	-0.537	-0.409
delta_Rv3811	-0.522	-0.201
delta_Rv0954	0.044	0.828
PonA1	0.512	0.177
EccD1_KO	-1.043	-1.727
EspI_KO	-0.841	-1.931
PE35_KO	-0.668	-1.248
PPE68_KO	-0.63	-1.017
glycerol2	0.443	0.422
lignocerate	0.75	0.559
oleate	0.339	-0.903
phosphatidylcholine	0.335	0.172
acetate	0.151	0.321
glucAc	0.282	0.587
Rv0950ko	0.103	0.066
Rv1096ko	0.621	0.709
Rv3684ko	0.075	-0.072
delta_otsA_trehalose	-0.155	1.156