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 Rv3180c/-

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

	Rv0688/-	Rv3180c/-
Fe_supp_jason_reseq	0.412	-1.722
low_pH_jason_reseq	0.994	-0.51
NO_jason_reseq	0.625	0.572
B6_jason_reseq	0.83	-0.272
MHCII_jason_reseq	1.135	1.065
Isoniazid02	0.084	0.908
Rifampicin4	0.482	1.134
Ethambutol3	-0.495	0.601
Meropenem3	-0.379	0.962
Vancomycin16	0.443	0.191
Rv2680_day32	0.019	0.503
H37Rv_KO_MarP	0.313	0.49
hypoxia_3wks	0.901	-0.335
hypoxia_6wks	-0.115	-0.395
glycerol	-0.881	0.562
cholesterol	-0.545	-0.602
AJ	-0.454	-0.536
Bibs02	0.058	0.429
Bibs02c	0.388	0.682
BL6	0.03	-0.55
BL6a	-0.293	-0.08
BXD01	0.082	-0.097
BXD010	0.061	-1.343
BXD011	0.118	-0.576
BXD03	-0.305	-2.341
BXD04	0.049	-1.41
BXD05	-0.09	-0.693
BXD06	-0.314	-1.69
BXD07	-0.218	-0.696
BXD08	0.424	0.588
BXD09	-0.777	-0.312
CAST	0.145	-0.355
CCcont	-0.221	-0.189
DS01	0.917	0.878
DS02	0.939	1.289
DS04	0.838	1.244
DS0c	0.731	1.648
GP01	-0.978	-0.483
GP02	-0.86	-1.123
GP0c	0.091	-0.739
NOD	0.757	-1.645
NZO	-0.257	-0.461
PWK	0.24	-1.199
H37Rv_KO_CtpC	-0.574	-1.931
H37Rv_KO_CtpD	-0.063	0.618
H37Rv_KO_Rv1272	0.704	-1.01
H37Rv_KO_SugABC	0.603	-1.526
H37Rv_KO_MbtN	-1.289	-1.828
Trans05	-0.022	0.091
macrophage_unactivated	0.047	0.174
IL1	-0.475	-3.135
Rapamycin	0.046	0.169
Tcell	-0.469	-0.45
GMCSF	-1.505	-3.72
IFNab	-0.973	-3.196
IFNg	-0.615	-1.227
IFNg_GMCSF1	-0.047	-1.056
Rv1432_day32	0.465	0.0
Rv1565c_day32	-0.098	0.927
secA2_input	0.307	-0.473
delta_Rv3594	-0.291	0.561
delta_Rv3717	0.271	0.0
delta_Rv3811	0.913	0.981
delta_Rv0954	-0.41	1.078
PonA1	0.335	0.515
EccD1_KO	0.286	-0.401
EspI_KO	0.328	-0.69
PE35_KO	-0.414	-1.706
PPE68_KO	0.0	-1.705
glycerol2	-0.014	0.074
lignocerate	-0.049	-0.09
oleate	-0.189	0.373
phosphatidylcholine	0.28	0.368
acetate	0.186	0.256
glucAc	-0.301	0.392
Rv0950ko	0.193	0.479
Rv1096ko	0.555	1.668
Rv3684ko	0.413	0.468
delta_otsA_trehalose	-1.343	-0.915