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 Rv1319c/-

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

	Rv0138/-	Rv1319c/-
Fe_supp_jason_reseq	-0.759	0.224
low_pH_jason_reseq	-0.778	-0.067
NO_jason_reseq	-0.131	-0.121
B6_jason_reseq	-0.133	-0.089
MHCII_jason_reseq	-0.222	0.244
Isoniazid02	1.099	-0.125
Rifampicin4	-0.398	0.455
Ethambutol3	2.393	1.665
Meropenem3	0.652	0.171
Vancomycin16	-0.096	0.172
Rv2680_day32	1.396	0.795
H37Rv_KO_MarP	0.306	0.262
hypoxia_3wks	0.187	-0.024
hypoxia_6wks	0.236	0.259
glycerol	0.767	-0.274
cholesterol	0.272	-0.221
AJ	0.635	-0.345
Bibs02	0.045	-0.036
Bibs02c	0.499	-0.211
BL6	-0.08	0.024
BL6a	0.346	-0.191
BXD01	0.259	-0.104
BXD010	-0.77	-0.185
BXD011	0.054	-0.01
BXD03	0.329	-0.07
BXD04	-0.094	-0.019
BXD05	0.052	-0.058
BXD06	-0.024	-0.169
BXD07	0.196	-0.374
BXD08	-0.231	-0.005
BXD09	-0.547	-0.252
CAST	0.627	0.043
CCcont	0.037	-0.434
DS01	-0.139	-0.009
DS02	-0.274	-0.008
DS04	0.364	0.101
DS0c	0.009	-0.42
GP01	-0.302	0.385
GP02	0.915	0.295
GP0c	0.219	-0.041
NOD	-0.116	0.651
NZO	0.386	-0.642
PWK	0.22	-0.045
H37Rv_KO_CtpC	0.305	0.271
H37Rv_KO_CtpD	1.534	0.903
H37Rv_KO_Rv1272	0.13	0.355
H37Rv_KO_SugABC	0.987	0.535
H37Rv_KO_MbtN	0.582	0.061
Trans05	0.136	0.276
macrophage_unactivated	0.846	0.36
IL1	-0.442	0.11
Rapamycin	0.322	-0.549
Tcell	-0.44	-0.081
GMCSF	-0.143	-0.082
IFNab	-0.759	-0.154
IFNg	0.043	0.083
IFNg_GMCSF1	0.459	-0.019
Rv1432_day32	0.67	0.827
Rv1565c_day32	-0.924	0.248
secA2_input	-0.348	-0.371
delta_Rv3594	-0.791	-0.203
delta_Rv3717	-0.395	0.039
delta_Rv3811	-0.714	-0.187
delta_Rv0954	-1.23	0.0
PonA1	-0.491	0.078
EccD1_KO	0.089	-0.378
EspI_KO	-0.391	-0.037
PE35_KO	0.07	0.222
PPE68_KO	-0.243	-0.064
glycerol2	0.647	0.633
lignocerate	0.549	0.509
oleate	0.275	0.695
phosphatidylcholine	0.37	0.745
acetate	0.291	-0.17
glucAc	0.318	-0.127
Rv0950ko	-0.039	0.0
Rv1096ko	-0.196	-0.238
Rv3684ko	0.17	-0.76
delta_otsA_trehalose	-0.057	-0.132