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 Rv0477/-:

update plot	correlation	link to info on gene
Rv0144/-	(cc=0.5603)	info on Rv0144/-
Rv3218/-	(cc=0.518)	info on Rv3218/-
Rv2695/-	(cc=0.517)	info on Rv2695/-
Rv2263/-	(cc=0.4942)	info on Rv2263/-
Rv0194/-	(cc=0.4859)	info on Rv0194/-
Rv3840/-	(cc=0.4834)	info on Rv3840/-
Rv0122/-	(cc=0.4829)	info on Rv0122/-
Rv1506c/-	(cc=0.4686)	info on Rv1506c/-
Rv1513/-	(cc=0.4679)	info on Rv1513/-
Rv0217c/lipW	(cc=0.4668)	info on Rv0217c/lipW

Correlation of Rv0477/- with Rv0144/-

Normalized LFCs for Rv0477/-:
(description and provenance of datasets)

	Rv0477/-	Rv0144/-
Fe_supp_jason_reseq	0.098	0.106
low_pH_jason_reseq	-1.051	-0.88
NO_jason_reseq	-0.512	-0.858
B6_jason_reseq	0.415	-0.045
MHCII_jason_reseq	0.42	0.441
Isoniazid02	-0.506	-0.923
Rifampicin4	-0.073	-0.217
Ethambutol3	-0.427	-0.303
Meropenem3	-0.14	0.611
Vancomycin16	-0.554	-0.966
Rv2680_day32	-0.178	0.026
H37Rv_KO_MarP	0.302	-0.021
hypoxia_3wks	0.267	0.179
hypoxia_6wks	-0.125	0.077
glycerol	-0.471	-0.888
cholesterol	0.363	-0.69
AJ	-0.195	-0.351
Bibs02	-0.162	-0.024
Bibs02c	0.841	0.526
BL6	-0.034	-0.711
BL6a	0.647	-0.148
BXD01	0.627	0.252
BXD010	0.095	-0.398
BXD011	0.711	-0.325
BXD03	-0.379	-0.464
BXD04	0.398	0.449
BXD05	0.071	0.0
BXD06	0.456	0.032
BXD07	0.236	-0.339
BXD08	0.474	-0.021
BXD09	0.305	-0.133
CAST	0.035	0.384
CCcont	-0.677	-0.83
DS01	0.236	-0.089
DS02	0.383	0.178
DS04	0.856	0.288
DS0c	0.426	1.087
GP01	1.27	0.784
GP02	1.634	1.281
GP0c	0.372	-0.116
NOD	-0.802	-0.024
NZO	0.993	0.407
PWK	0.577	0.117
H37Rv_KO_CtpC	0.751	0.349
H37Rv_KO_CtpD	0.718	0.388
H37Rv_KO_Rv1272	-0.634	0.721
H37Rv_KO_SugABC	0.701	0.593
H37Rv_KO_MbtN	1.493	-0.089
Trans05	0.698	0.154
macrophage_unactivated	-0.347	-0.543
IL1	-0.193	0.409
Rapamycin	-0.479	-0.601
Tcell	-0.345	-0.042
GMCSF	0.33	0.256
IFNab	0.278	-0.81
IFNg	0.102	-0.23
IFNg_GMCSF1	0.236	0.163
Rv1432_day32	0.275	1.115
Rv1565c_day32	-0.742	0.714
secA2_input	0.358	0.091
delta_Rv3594	-0.107	-0.705
delta_Rv3717	-0.133	-0.131
delta_Rv3811	-0.671	-0.112
delta_Rv0954	-0.721	0.154
PonA1	-1.163	0.083
EccD1_KO	0.082	-0.641
EspI_KO	0.274	-0.93
PE35_KO	-0.866	-0.96
PPE68_KO	-0.49	-1.065
glycerol2	-0.017	-0.425
lignocerate	-0.809	-0.63
oleate	0.768	0.095
phosphatidylcholine	-0.51	-0.164
acetate	-1.049	-1.009
glucAc	-2.238	-1.246
Rv0950ko	1.155	0.507
Rv1096ko	0.166	0.084
Rv3684ko	0.868	0.193
delta_otsA_trehalose	0.487	-0.144