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 Rv1618/tesB1

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

	Rv1760/-	Rv1618/tesB1
Fe_supp_jason_reseq	0.36	0.0
low_pH_jason_reseq	-1.173	-0.487
NO_jason_reseq	0.333	0.27
B6_jason_reseq	0.16	0.458
MHCII_jason_reseq	0.248	0.127
Isoniazid02	0.278	0.265
Rifampicin4	0.016	0.162
Ethambutol3	0.28	0.024
Meropenem3	1.035	1.802
Vancomycin16	0.119	0.133
Rv2680_day32	-0.408	0.733
H37Rv_KO_MarP	-0.141	0.148
hypoxia_3wks	-0.064	-0.148
hypoxia_6wks	0.098	0.019
glycerol	0.176	1.059
cholesterol	0.434	0.239
AJ	0.745	0.289
Bibs02	0.065	-0.049
Bibs02c	-0.07	-0.312
BL6	0.0	-0.255
BL6a	-0.195	0.039
BXD01	0.028	-0.255
BXD010	-0.168	-0.559
BXD011	0.041	-0.034
BXD03	-0.245	0.415
BXD04	0.044	-0.864
BXD05	-0.117	1.028
BXD06	-0.196	0.159
BXD07	-0.306	0.213
BXD08	0.298	0.11
BXD09	-0.189	0.064
CAST	0.405	-0.093
CCcont	-0.106	0.058
DS01	0.252	0.267
DS02	0.153	0.309
DS04	-0.056	0.822
DS0c	0.159	0.454
GP01	0.953	1.354
GP02	1.058	0.561
GP0c	0.478	0.624
NOD	0.849	1.188
NZO	0.63	0.363
PWK	0.529	0.026
H37Rv_KO_CtpC	0.162	0.904
H37Rv_KO_CtpD	0.262	-0.646
H37Rv_KO_Rv1272	0.751	1.437
H37Rv_KO_SugABC	-0.21	0.766
H37Rv_KO_MbtN	0.494	0.205
Trans05	0.36	1.184
macrophage_unactivated	0.271	0.77
IL1	-0.347	-0.098
Rapamycin	-0.457	-0.101
Tcell	-0.339	0.0
GMCSF	-0.032	-0.042
IFNab	-0.472	-0.275
IFNg	0.0	0.409
IFNg_GMCSF1	0.83	0.83
Rv1432_day32	0.082	0.561
Rv1565c_day32	-0.125	0.155
secA2_input	-0.18	0.816
delta_Rv3594	-0.067	-0.024
delta_Rv3717	0.006	0.069
delta_Rv3811	0.071	-0.11
delta_Rv0954	0.317	0.315
PonA1	0.15	-0.339
EccD1_KO	-0.622	0.0
EspI_KO	-0.716	0.074
PE35_KO	-0.365	0.123
PPE68_KO	-0.301	0.163
glycerol2	0.391	0.433
lignocerate	0.592	0.867
oleate	0.285	0.077
phosphatidylcholine	0.609	0.69
acetate	-0.101	0.615
glucAc	0.213	1.176
Rv0950ko	0.467	-0.13
Rv1096ko	-0.106	-0.549
Rv3684ko	0.151	-0.439
delta_otsA_trehalose	0.432	0.134