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 Rv0138/-:

update plot	correlation	link to info on gene
Rv3784/-	(cc=0.601)	info on Rv3784/-
Rv3440c/-	(cc=0.519)	info on Rv3440c/-
Rv0454/-	(cc=0.4943)	info on Rv0454/-
Rv3585/radA	(cc=0.4742)	info on Rv3585/radA
Rv3879c/espK	(cc=0.4715)	info on Rv3879c/espK
Rv3018c/PPE46	(cc=0.4683)	info on Rv3018c/PPE46
Rv1319c/-	(cc=0.4546)	info on Rv1319c/-
Rv1249c/-	(cc=0.4538)	info on Rv1249c/-
Rv3729/-	(cc=0.4481)	info on Rv3729/-
Rv3339c/icd1	(cc=0.4473)	info on Rv3339c/icd1

Correlation of Rv0138/- with Rv3440c/-

Normalized LFCs for Rv0138/-:
(description and provenance of datasets)

	Rv0138/-	Rv3440c/-
Fe_supp_jason_reseq	-0.759	-0.278
low_pH_jason_reseq	-0.778	-0.925
NO_jason_reseq	-0.131	-0.788
B6_jason_reseq	-0.133	-0.178
MHCII_jason_reseq	-0.222	-0.112
Isoniazid02	1.099	0.838
Rifampicin4	-0.398	0.85
Ethambutol3	2.393	0.817
Meropenem3	0.652	0.724
Vancomycin16	-0.096	0.517
Rv2680_day32	1.396	0.505
H37Rv_KO_MarP	0.306	-0.023
hypoxia_3wks	0.187	0.152
hypoxia_6wks	0.236	0.0
glycerol	0.767	0.758
cholesterol	0.272	0.088
AJ	0.635	0.615
Bibs02	0.045	0.668
Bibs02c	0.499	0.299
BL6	-0.08	-0.197
BL6a	0.346	0.113
BXD01	0.259	0.243
BXD010	-0.77	-0.789
BXD011	0.054	-1.159
BXD03	0.329	-0.563
BXD04	-0.094	0.079
BXD05	0.052	-0.97
BXD06	-0.024	-0.476
BXD07	0.196	-0.377
BXD08	-0.231	0.037
BXD09	-0.547	0.019
CAST	0.627	0.417
CCcont	0.037	-0.107
DS01	-0.139	0.874
DS02	-0.274	0.837
DS04	0.364	0.86
DS0c	0.009	0.701
GP01	-0.302	0.0
GP02	0.915	1.055
GP0c	0.219	0.213
NOD	-0.116	0.181
NZO	0.386	0.811
PWK	0.22	0.244
H37Rv_KO_CtpC	0.305	0.537
H37Rv_KO_CtpD	1.534	0.796
H37Rv_KO_Rv1272	0.13	0.343
H37Rv_KO_SugABC	0.987	1.312
H37Rv_KO_MbtN	0.582	0.29
Trans05	0.136	0.018
macrophage_unactivated	0.846	-0.464
IL1	-0.442	-0.065
Rapamycin	0.322	0.178
Tcell	-0.44	-0.42
GMCSF	-0.143	-0.293
IFNab	-0.759	0.417
IFNg	0.043	0.222
IFNg_GMCSF1	0.459	0.101
Rv1432_day32	0.67	0.158
Rv1565c_day32	-0.924	-0.316
secA2_input	-0.348	-0.124
delta_Rv3594	-0.791	-0.285
delta_Rv3717	-0.395	-0.643
delta_Rv3811	-0.714	-0.223
delta_Rv0954	-1.23	-0.398
PonA1	-0.491	-0.63
EccD1_KO	0.089	-0.237
EspI_KO	-0.391	-0.011
PE35_KO	0.07	-0.061
PPE68_KO	-0.243	-0.147
glycerol2	0.647	1.042
lignocerate	0.549	0.56
oleate	0.275	1.059
phosphatidylcholine	0.37	0.737
acetate	0.291	0.17
glucAc	0.318	-0.134
Rv0950ko	-0.039	0.805
Rv1096ko	-0.196	0.434
Rv3684ko	0.17	0.694
delta_otsA_trehalose	-0.057	-0.583