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 Rv3639c/-:

update plot	correlation	link to info on gene
Rv0839/-	(cc=0.4798)	info on Rv0839/-
Rv0915c/PPE14	(cc=0.397)	info on Rv0915c/PPE14
Rv0864/moaC2	(cc=0.3655)	info on Rv0864/moaC2
Rv0912/-	(cc=0.3631)	info on Rv0912/-
Rv0630c/recB	(cc=0.3611)	info on Rv0630c/recB
Rv0661c/vapC7	(cc=0.3577)	info on Rv0661c/vapC7
Rv3055/-	(cc=0.3489)	info on Rv3055/-
Rv3628/ppa	(cc=0.3467)	info on Rv3628/ppa
Rv3585/radA	(cc=0.3428)	info on Rv3585/radA
Rv1975/-	(cc=0.3411)	info on Rv1975/-

Correlation of Rv3639c/- with Rv0839/-

Normalized LFCs for Rv3639c/-:
(description and provenance of datasets)

	Rv3639c/-	Rv0839/-
Fe_supp_jason_reseq	0.983	0.63
low_pH_jason_reseq	-1.625	-0.865
NO_jason_reseq	-0.662	0.845
B6_jason_reseq	-1.352	-0.214
MHCII_jason_reseq	0.135	-0.189
Isoniazid02	0.575	0.914
Rifampicin4	-0.374	0.046
Ethambutol3	0.354	0.328
Meropenem3	-0.012	0.131
Vancomycin16	0.133	0.093
Rv2680_day32	1.398	0.356
H37Rv_KO_MarP	0.264	0.402
hypoxia_3wks	-0.718	-0.259
hypoxia_6wks	-0.284	0.476
glycerol	0.669	-0.048
cholesterol	0.153	-0.519
AJ	0.076	-0.069
Bibs02	-0.261	-0.429
Bibs02c	0.459	0.286
BL6	-0.442	0.215
BL6a	0.703	0.23
BXD01	-0.755	-0.07
BXD010	0.247	0.347
BXD011	-0.134	0.194
BXD03	-0.784	0.348
BXD04	-0.309	0.029
BXD05	0.259	-0.376
BXD06	-0.108	-0.165
BXD07	-0.198	0.197
BXD08	0.014	0.55
BXD09	0.383	-0.27
CAST	0.075	-0.04
CCcont	0.274	0.378
DS01	-0.108	0.082
DS02	0.647	-0.928
DS04	-0.458	-0.177
DS0c	0.094	0.489
GP01	1.928	0.868
GP02	-0.405	0.341
GP0c	1.21	0.365
NOD	1.899	0.858
NZO	1.389	-0.071
PWK	0.742	0.347
H37Rv_KO_CtpC	-0.093	0.295
H37Rv_KO_CtpD	1.045	1.904
H37Rv_KO_Rv1272	0.091	-0.438
H37Rv_KO_SugABC	0.42	0.362
H37Rv_KO_MbtN	-0.414	0.119
Trans05	-0.89	-0.288
macrophage_unactivated	0.982	0.309
IL1	0.43	0.311
Rapamycin	0.632	1.022
Tcell	0.046	0.176
GMCSF	0.908	0.182
IFNab	0.478	0.363
IFNg	0.486	0.102
IFNg_GMCSF1	1.379	0.509
Rv1432_day32	-0.812	-0.532
Rv1565c_day32	-0.024	0.69
secA2_input	-0.396	0.759
delta_Rv3594	-0.431	0.083
delta_Rv3717	-0.813	-0.477
delta_Rv3811	-0.358	0.259
delta_Rv0954	-1.994	0.116
PonA1	-0.267	-0.01
EccD1_KO	0.562	0.776
EspI_KO	0.137	0.776
PE35_KO	1.324	1.068
PPE68_KO	1.753	1.552
glycerol2	0.563	0.581
lignocerate	0.184	0.667
oleate	-0.096	0.208
phosphatidylcholine	0.228	0.447
acetate	-0.833	-0.091
glucAc	0.168	0.216
Rv0950ko	0.504	0.317
Rv1096ko	-0.06	0.501
Rv3684ko	0.658	0.642
delta_otsA_trehalose	0.654	-0.636