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 Rv1976c/-:

update plot	correlation	link to info on gene
Rv0933/pstB	(cc=0.4869)	info on Rv0933/pstB
Rv0300/vapB2	(cc=0.4675)	info on Rv0300/vapB2
Rv2854/-	(cc=0.4611)	info on Rv2854/-
Rv0387c/-	(cc=0.4535)	info on Rv0387c/-
Rv0383c/-	(cc=0.4417)	info on Rv0383c/-
Rv1075c/-	(cc=0.4345)	info on Rv1075c/-
Rv2831/echA16	(cc=0.4262)	info on Rv2831/echA16
Rv3086/adhD	(cc=0.4255)	info on Rv3086/adhD
Rv1943c/mazE5	(cc=0.4248)	info on Rv1943c/mazE5
Rv3439c/-	(cc=0.422)	info on Rv3439c/-

Correlation of Rv1976c/- with Rv0387c/-

Normalized LFCs for Rv1976c/-:
(description and provenance of datasets)

	Rv1976c/-	Rv0387c/-
Fe_supp_jason_reseq	0.696	0.197
low_pH_jason_reseq	1.633	-0.268
NO_jason_reseq	-0.564	-0.297
B6_jason_reseq	0.857	0.51
MHCII_jason_reseq	1.33	1.019
Isoniazid02	-0.138	-0.33
Rifampicin4	-1.148	-0.615
Ethambutol3	-0.413	0.79
Meropenem3	0.086	-0.49
Vancomycin16	-0.411	-0.462
Rv2680_day32	-2.312	-0.501
H37Rv_KO_MarP	0.814	0.358
hypoxia_3wks	-0.411	-0.104
hypoxia_6wks	-0.497	-0.645
glycerol	-0.24	0.851
cholesterol	0.392	0.193
AJ	1.676	0.639
Bibs02	0.947	1.025
Bibs02c	0.67	0.199
BL6	0.186	0.67
BL6a	0.779	0.286
BXD01	-1.329	-0.016
BXD010	-0.049	0.128
BXD011	-0.459	-0.056
BXD03	-0.351	-0.216
BXD04	-0.328	0.192
BXD05	-0.168	0.451
BXD06	-0.223	-0.223
BXD07	0.559	-0.115
BXD08	-0.861	0.088
BXD09	0.324	0.035
CAST	0.649	-0.506
CCcont	-0.116	0.116
DS01	1.61	0.072
DS02	1.224	1.015
DS04	-0.944	0.32
DS0c	0.627	0.324
GP01	-1.305	-0.012
GP02	-2.7	-0.305
GP0c	-1.427	0.301
NOD	0.239	1.064
NZO	-0.705	0.049
PWK	-0.055	0.107
H37Rv_KO_CtpC	-0.211	-0.485
H37Rv_KO_CtpD	1.572	0.236
H37Rv_KO_Rv1272	1.429	-0.457
H37Rv_KO_SugABC	-1.412	-0.354
H37Rv_KO_MbtN	-1.964	-0.086
Trans05	0.306	0.079
macrophage_unactivated	0.735	-0.243
IL1	0.569	0.237
Rapamycin	0.516	0.292
Tcell	0.587	0.098
GMCSF	0.428	0.705
IFNab	-0.127	0.33
IFNg	0.414	0.508
IFNg_GMCSF1	-0.044	0.094
Rv1432_day32	-1.516	-0.063
Rv1565c_day32	1.387	0.734
secA2_input	0.269	-0.92
delta_Rv3594	2.527	1.394
delta_Rv3717	2.834	1.179
delta_Rv3811	1.417	0.864
delta_Rv0954	2.398	0.854
PonA1	3.281	0.859
EccD1_KO	0.454	-0.339
EspI_KO	-1.298	-0.77
PE35_KO	-0.583	-1.065
PPE68_KO	-0.704	-0.864
glycerol2	1.065	0.785
lignocerate	0.11	1.145
oleate	0.278	0.573
phosphatidylcholine	0.564	0.826
acetate	0.535	0.708
glucAc	0.488	0.789
Rv0950ko	1.737	0.268
Rv1096ko	1.2	0.567
Rv3684ko	0.265	0.291
delta_otsA_trehalose	-2.64	1.148