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 Rv1708/-

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

	Rv0688/-	Rv1708/-
Fe_supp_jason_reseq	0.412	0.415
low_pH_jason_reseq	0.994	0.231
NO_jason_reseq	0.625	0.362
B6_jason_reseq	0.83	1.59
MHCII_jason_reseq	1.135	1.501
Isoniazid02	0.084	0.0
Rifampicin4	0.482	-0.341
Ethambutol3	-0.495	0.14
Meropenem3	-0.379	-0.151
Vancomycin16	0.443	-0.334
Rv2680_day32	0.019	0.078
H37Rv_KO_MarP	0.313	0.313
hypoxia_3wks	0.901	-0.427
hypoxia_6wks	-0.115	-0.727
glycerol	-0.881	-0.607
cholesterol	-0.545	-0.246
AJ	-0.454	-0.866
Bibs02	0.058	-0.55
Bibs02c	0.388	-0.941
BL6	0.03	-0.906
BL6a	-0.293	-1.435
BXD01	0.082	-0.695
BXD010	0.061	-0.928
BXD011	0.118	-0.923
BXD03	-0.305	-0.98
BXD04	0.049	-0.896
BXD05	-0.09	-0.975
BXD06	-0.314	-0.967
BXD07	-0.218	-1.003
BXD08	0.424	-0.963
BXD09	-0.777	-1.018
CAST	0.145	-0.859
CCcont	-0.221	-1.082
DS01	0.917	0.346
DS02	0.939	0.922
DS04	0.838	0.284
DS0c	0.731	0.596
GP01	-0.978	-0.715
GP02	-0.86	-0.603
GP0c	0.091	-0.585
NOD	0.757	-0.381
NZO	-0.257	-0.6
PWK	0.24	0.099
H37Rv_KO_CtpC	-0.574	-1.014
H37Rv_KO_CtpD	-0.063	-0.918
H37Rv_KO_Rv1272	0.704	-1.022
H37Rv_KO_SugABC	0.603	-0.529
H37Rv_KO_MbtN	-1.289	-0.644
Trans05	-0.022	-0.144
macrophage_unactivated	0.047	-0.83
IL1	-0.475	-0.78
Rapamycin	0.046	-0.807
Tcell	-0.469	-0.857
GMCSF	-1.505	-0.694
IFNab	-0.973	-0.795
IFNg	-0.615	-0.703
IFNg_GMCSF1	-0.047	-0.396
Rv1432_day32	0.465	0.0
Rv1565c_day32	-0.098	0.0
secA2_input	0.307	-0.377
delta_Rv3594	-0.291	-0.315
delta_Rv3717	0.271	0.331
delta_Rv3811	0.913	0.918
delta_Rv0954	-0.41	-0.756
PonA1	0.335	-0.516
EccD1_KO	0.286	0.73
EspI_KO	0.328	1.435
PE35_KO	-0.414	0.335
PPE68_KO	0.0	0.368
glycerol2	-0.014	0.338
lignocerate	-0.049	0.0
oleate	-0.189	0.179
phosphatidylcholine	0.28	0.176
acetate	0.186	0.743
glucAc	-0.301	-0.143
Rv0950ko	0.193	-0.669
Rv1096ko	0.555	0.302
Rv3684ko	0.413	0.632
delta_otsA_trehalose	-1.343	0.654