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 Rv1760/-:

update plot	correlation	link to info on gene
Rv2351c/plcA	(cc=0.5895)	info on Rv2351c/plcA
Rv2025c/-	(cc=0.5707)	info on Rv2025c/-
Rv3784/-	(cc=0.5178)	info on Rv3784/-
Rv1527c/pks5	(cc=0.4985)	info on Rv1527c/pks5
Rv3294c/-	(cc=0.4861)	info on Rv3294c/-
Rv0336/-	(cc=0.4703)	info on Rv0336/-
Rv1618/tesB1	(cc=0.4698)	info on Rv1618/tesB1
Rv3367/PE_PGRS51	(cc=0.459)	info on Rv3367/PE_PGRS51
Rv2443/dctA	(cc=0.4576)	info on Rv2443/dctA
Rv1425/-	(cc=0.4574)	info on Rv1425/-

Correlation of Rv1760/- with Rv2443/dctA

Normalized LFCs for Rv1760/-:
(description and provenance of datasets)

	Rv1760/-	Rv2443/dctA
Fe_supp_jason_reseq	0.36	-0.074
low_pH_jason_reseq	-1.173	-1.052
NO_jason_reseq	0.333	-0.108
B6_jason_reseq	0.16	-0.548
MHCII_jason_reseq	0.248	-0.268
Isoniazid02	0.278	-0.426
Rifampicin4	0.016	0.049
Ethambutol3	0.28	-0.383
Meropenem3	1.035	0.152
Vancomycin16	0.119	-0.501
Rv2680_day32	-0.408	0.053
H37Rv_KO_MarP	-0.141	-0.121
hypoxia_3wks	-0.064	-0.068
hypoxia_6wks	0.098	0.267
glycerol	0.176	-0.601
cholesterol	0.434	0.37
AJ	0.745	0.977
Bibs02	0.065	0.424
Bibs02c	-0.07	-0.238
BL6	0.0	0.607
BL6a	-0.195	0.026
BXD01	0.028	0.443
BXD010	-0.168	0.305
BXD011	0.041	0.372
BXD03	-0.245	0.386
BXD04	0.044	0.409
BXD05	-0.117	0.023
BXD06	-0.196	0.535
BXD07	-0.306	0.444
BXD08	0.298	0.468
BXD09	-0.189	0.321
CAST	0.405	0.469
CCcont	-0.106	-0.236
DS01	0.252	0.224
DS02	0.153	0.224
DS04	-0.056	0.707
DS0c	0.159	0.127
GP01	0.953	0.029
GP02	1.058	1.221
GP0c	0.478	-0.023
NOD	0.849	0.926
NZO	0.63	0.433
PWK	0.529	1.698
H37Rv_KO_CtpC	0.162	0.021
H37Rv_KO_CtpD	0.262	0.851
H37Rv_KO_Rv1272	0.751	0.262
H37Rv_KO_SugABC	-0.21	0.711
H37Rv_KO_MbtN	0.494	0.026
Trans05	0.36	-0.081
macrophage_unactivated	0.271	0.347
IL1	-0.347	-0.492
Rapamycin	-0.457	-0.488
Tcell	-0.339	-0.14
GMCSF	-0.032	0.127
IFNab	-0.472	-0.166
IFNg	0.0	0.556
IFNg_GMCSF1	0.83	0.892
Rv1432_day32	0.082	0.262
Rv1565c_day32	-0.125	0.889
secA2_input	-0.18	-0.728
delta_Rv3594	-0.067	-0.486
delta_Rv3717	0.006	-0.79
delta_Rv3811	0.071	-0.431
delta_Rv0954	0.317	0.481
PonA1	0.15	0.369
EccD1_KO	-0.622	-0.332
EspI_KO	-0.716	-0.599
PE35_KO	-0.365	-0.551
PPE68_KO	-0.301	-0.787
glycerol2	0.391	0.067
lignocerate	0.592	-0.03
oleate	0.285	0.492
phosphatidylcholine	0.609	0.242
acetate	-0.101	-0.258
glucAc	0.213	-0.762
Rv0950ko	0.467	-0.25
Rv1096ko	-0.106	-0.835
Rv3684ko	0.151	-0.698
delta_otsA_trehalose	0.432	0.483