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 Rv1377c/-:

update plot	correlation	link to info on gene
Rv0329c/-	(cc=0.4981)	info on Rv0329c/-
Rv0664/vapB8	(cc=0.4956)	info on Rv0664/vapB8
Rv2499c/-	(cc=0.4812)	info on Rv2499c/-
Rv2009/vapB15	(cc=0.478)	info on Rv2009/vapB15
Rv2802c/-	(cc=0.4693)	info on Rv2802c/-
Rv1192/-	(cc=0.458)	info on Rv1192/-
Rv1186c/-	(cc=0.4524)	info on Rv1186c/-
Rv1974/-	(cc=0.4448)	info on Rv1974/-
Rv1731/gabD2	(cc=0.4447)	info on Rv1731/gabD2
Rv2813/-	(cc=0.4369)	info on Rv2813/-

Correlation of Rv1377c/- with Rv1192/-

Normalized LFCs for Rv1377c/-:
(description and provenance of datasets)

	Rv1377c/-	Rv1192/-
Fe_supp_jason_reseq	1.35	1.031
low_pH_jason_reseq	-0.952	-1.225
NO_jason_reseq	0.042	-0.189
B6_jason_reseq	-0.018	1.83
MHCII_jason_reseq	0.206	1.815
Isoniazid02	0.658	0.377
Rifampicin4	0.81	-0.125
Ethambutol3	0.209	1.46
Meropenem3	0.987	1.205
Vancomycin16	1.035	0.119
Rv2680_day32	0.142	1.037
H37Rv_KO_MarP	0.323	0.203
hypoxia_3wks	-0.574	-0.861
hypoxia_6wks	-0.819	-1.207
glycerol	0.496	-1.119
cholesterol	0.857	-0.023
AJ	0.032	0.266
Bibs02	0.617	0.485
Bibs02c	-0.462	0.377
BL6	-0.465	-0.701
BL6a	0.0	-0.218
BXD01	0.335	-0.434
BXD010	0.071	-1.013
BXD011	-0.185	-0.527
BXD03	0.278	-0.481
BXD04	-0.524	-0.115
BXD05	-0.5	-1.431
BXD06	0.083	-0.467
BXD07	0.14	-0.623
BXD08	0.281	-0.793
BXD09	-0.18	-0.899
CAST	0.554	0.469
CCcont	0.021	-0.592
DS01	-0.481	1.167
DS02	0.734	0.429
DS04	0.645	1.526
DS0c	0.903	0.947
GP01	0.576	-0.602
GP02	-0.276	0.033
GP0c	0.632	-1.353
NOD	1.84	0.731
NZO	0.879	0.025
PWK	0.122	0.374
H37Rv_KO_CtpC	-0.759	-0.644
H37Rv_KO_CtpD	-1.164	-0.502
H37Rv_KO_Rv1272	-1.011	-0.653
H37Rv_KO_SugABC	-0.543	-0.293
H37Rv_KO_MbtN	-1.402	-1.325
Trans05	-0.243	-0.495
macrophage_unactivated	-0.439	0.092
IL1	0.492	-0.329
Rapamycin	0.479	-1.04
Tcell	0.345	0.248
GMCSF	0.198	-0.465
IFNab	0.414	-0.305
IFNg	0.257	-0.81
IFNg_GMCSF1	-0.176	-0.418
Rv1432_day32	-0.437	-0.92
Rv1565c_day32	-0.34	-0.573
secA2_input	0.163	-0.177
delta_Rv3594	0.502	0.659
delta_Rv3717	0.098	0.02
delta_Rv3811	0.138	0.946
delta_Rv0954	0.928	1.187
PonA1	1.019	0.372
EccD1_KO	0.76	-0.957
EspI_KO	-0.627	-0.2
PE35_KO	0.35	-0.277
PPE68_KO	0.195	-0.035
glycerol2	0.326	0.935
lignocerate	0.878	1.103
oleate	-0.535	0.669
phosphatidylcholine	1.2	1.139
acetate	1.406	0.618
glucAc	1.266	0.666
Rv0950ko	1.381	0.648
Rv1096ko	0.811	0.682
Rv3684ko	0.881	0.383
delta_otsA_trehalose	0.974	-0.476