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 Rv0688/-:

update plot	correlation	link to info on gene
Rv0933/pstB	(cc=0.5353)	info on Rv0933/pstB
Rv0914c/-	(cc=0.5016)	info on Rv0914c/-
Rv3180c/-	(cc=0.4754)	info on Rv3180c/-
Rv3681c/whiB4	(cc=0.4722)	info on Rv3681c/whiB4
Rv2072c/cobL	(cc=0.4715)	info on Rv2072c/cobL
Rv1351/-	(cc=0.4602)	info on Rv1351/-
Rv1708/-	(cc=0.4517)	info on Rv1708/-
Rv1144/-	(cc=0.4339)	info on Rv1144/-
Rv0213c/-	(cc=0.4263)	info on Rv0213c/-
Rv3640c/-	(cc=0.4259)	info on Rv3640c/-

Correlation of Rv0688/- with Rv0914c/-

Normalized LFCs for Rv0688/-:
(description and provenance of datasets)

	Rv0688/-	Rv0914c/-
Fe_supp_jason_reseq	0.412	0.264
low_pH_jason_reseq	0.994	0.53
NO_jason_reseq	0.625	0.289
B6_jason_reseq	0.83	0.9
MHCII_jason_reseq	1.135	1.272
Isoniazid02	0.084	-0.453
Rifampicin4	0.482	0.157
Ethambutol3	-0.495	-0.378
Meropenem3	-0.379	0.2
Vancomycin16	0.443	0.478
Rv2680_day32	0.019	-1.695
H37Rv_KO_MarP	0.313	0.509
hypoxia_3wks	0.901	0.319
hypoxia_6wks	-0.115	-0.065
glycerol	-0.881	-0.913
cholesterol	-0.545	-0.512
AJ	-0.454	0.089
Bibs02	0.058	-0.827
Bibs02c	0.388	-0.594
BL6	0.03	-1.486
BL6a	-0.293	-1.083
BXD01	0.082	-1.172
BXD010	0.061	-0.826
BXD011	0.118	-1.499
BXD03	-0.305	-1.526
BXD04	0.049	-1.597
BXD05	-0.09	-0.898
BXD06	-0.314	-1.799
BXD07	-0.218	-1.234
BXD08	0.424	-0.887
BXD09	-0.777	-1.291
CAST	0.145	0.315
CCcont	-0.221	-1.536
DS01	0.917	0.811
DS02	0.939	0.625
DS04	0.838	0.682
DS0c	0.731	0.108
GP01	-0.978	-0.3
GP02	-0.86	-1.785
GP0c	0.091	-0.838
NOD	0.757	0.291
NZO	-0.257	-0.097
PWK	0.24	0.091
H37Rv_KO_CtpC	-0.574	-0.724
H37Rv_KO_CtpD	-0.063	-2.503
H37Rv_KO_Rv1272	0.704	-0.961
H37Rv_KO_SugABC	0.603	-0.286
H37Rv_KO_MbtN	-1.289	-1.36
Trans05	-0.022	0.021
macrophage_unactivated	0.047	-0.556
IL1	-0.475	-0.329
Rapamycin	0.046	-0.58
Tcell	-0.469	-1.03
GMCSF	-1.505	-0.993
IFNab	-0.973	-1.091
IFNg	-0.615	-0.73
IFNg_GMCSF1	-0.047	0.182
Rv1432_day32	0.465	0.242
Rv1565c_day32	-0.098	0.899
secA2_input	0.307	0.485
delta_Rv3594	-0.291	0.528
delta_Rv3717	0.271	0.064
delta_Rv3811	0.913	0.238
delta_Rv0954	-0.41	0.393
PonA1	0.335	0.65
EccD1_KO	0.286	0.273
EspI_KO	0.328	0.399
PE35_KO	-0.414	-0.219
PPE68_KO	0.0	0.038
glycerol2	-0.014	-0.371
lignocerate	-0.049	0.089
oleate	-0.189	-0.647
phosphatidylcholine	0.28	-0.434
acetate	0.186	-0.047
glucAc	-0.301	0.582
Rv0950ko	0.193	0.522
Rv1096ko	0.555	0.814
Rv3684ko	0.413	1.497
delta_otsA_trehalose	-1.343	0.0