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 Rv1527c/pks5

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

	Rv1760/-	Rv1527c/pks5
Fe_supp_jason_reseq	0.36	0.175
low_pH_jason_reseq	-1.173	-0.587
NO_jason_reseq	0.333	-0.155
B6_jason_reseq	0.16	0.181
MHCII_jason_reseq	0.248	0.229
Isoniazid02	0.278	-0.015
Rifampicin4	0.016	-0.057
Ethambutol3	0.28	0.225
Meropenem3	1.035	0.915
Vancomycin16	0.119	-0.056
Rv2680_day32	-0.408	-0.199
H37Rv_KO_MarP	-0.141	0.189
hypoxia_3wks	-0.064	0.159
hypoxia_6wks	0.098	0.294
glycerol	0.176	0.196
cholesterol	0.434	0.013
AJ	0.745	0.622
Bibs02	0.065	0.15
Bibs02c	-0.07	0.477
BL6	0.0	0.251
BL6a	-0.195	0.066
BXD01	0.028	-0.215
BXD010	-0.168	0.021
BXD011	0.041	-0.262
BXD03	-0.245	-0.108
BXD04	0.044	-0.508
BXD05	-0.117	0.022
BXD06	-0.196	-0.39
BXD07	-0.306	-0.036
BXD08	0.298	0.022
BXD09	-0.189	-0.304
CAST	0.405	-0.12
CCcont	-0.106	0.025
DS01	0.252	0.554
DS02	0.153	0.126
DS04	-0.056	0.455
DS0c	0.159	0.325
GP01	0.953	1.712
GP02	1.058	0.477
GP0c	0.478	0.555
NOD	0.849	0.304
NZO	0.63	0.314
PWK	0.529	-0.017
H37Rv_KO_CtpC	0.162	0.314
H37Rv_KO_CtpD	0.262	0.143
H37Rv_KO_Rv1272	0.751	0.415
H37Rv_KO_SugABC	-0.21	0.611
H37Rv_KO_MbtN	0.494	-0.13
Trans05	0.36	0.289
macrophage_unactivated	0.271	-0.158
IL1	-0.347	-0.074
Rapamycin	-0.457	-0.114
Tcell	-0.339	-0.081
GMCSF	-0.032	0.19
IFNab	-0.472	-0.151
IFNg	0.0	-0.134
IFNg_GMCSF1	0.83	0.189
Rv1432_day32	0.082	0.216
Rv1565c_day32	-0.125	-0.104
secA2_input	-0.18	0.523
delta_Rv3594	-0.067	0.021
delta_Rv3717	0.006	-0.374
delta_Rv3811	0.071	0.312
delta_Rv0954	0.317	-0.172
PonA1	0.15	0.492
EccD1_KO	-0.622	0.089
EspI_KO	-0.716	0.262
PE35_KO	-0.365	0.23
PPE68_KO	-0.301	0.378
glycerol2	0.391	0.46
lignocerate	0.592	0.673
oleate	0.285	0.373
phosphatidylcholine	0.609	0.696
acetate	-0.101	0.845
glucAc	0.213	0.441
Rv0950ko	0.467	0.422
Rv1096ko	-0.106	0.311
Rv3684ko	0.151	0.498
delta_otsA_trehalose	0.432	0.551