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 Rv2819c/-:

update plot	correlation	link to info on gene
Rv2648/-	(cc=0.5434)	info on Rv2648/-
Rv2267c/-	(cc=0.5401)	info on Rv2267c/-
Rv2512c/-	(cc=0.5268)	info on Rv2512c/-
Rv1948c/-	(cc=0.5251)	info on Rv1948c/-
Rv1199c/-	(cc=0.5245)	info on Rv1199c/-
Rv2276/cyp121	(cc=0.5088)	info on Rv2276/cyp121
Rv1498c/-	(cc=0.4979)	info on Rv1498c/-
Rv3784/-	(cc=0.4932)	info on Rv3784/-
Rv3490/otsA	(cc=0.4922)	info on Rv3490/otsA
Rv2809/-	(cc=0.4922)	info on Rv2809/-

Correlation of Rv2819c/- with Rv1199c/-

Normalized LFCs for Rv2819c/-:
(description and provenance of datasets)

	Rv2819c/-	Rv1199c/-
Fe_supp_jason_reseq	0.257	-0.916
low_pH_jason_reseq	-0.032	0.033
NO_jason_reseq	0.05	-0.415
B6_jason_reseq	0.083	-0.443
MHCII_jason_reseq	0.392	-0.243
Isoniazid02	-0.18	-0.749
Rifampicin4	0.406	0.393
Ethambutol3	1.216	-0.428
Meropenem3	-0.2	-0.12
Vancomycin16	0.255	-0.573
Rv2680_day32	0.526	-0.108
H37Rv_KO_MarP	-0.255	0.0
hypoxia_3wks	-0.506	0.052
hypoxia_6wks	-0.196	-0.136
glycerol	0.149	0.271
cholesterol	0.49	-0.222
AJ	1.397	1.008
Bibs02	0.449	1.078
Bibs02c	1.205	1.422
BL6	0.652	0.027
BL6a	1.124	0.847
BXD01	0.761	0.458
BXD010	0.543	0.566
BXD011	0.591	0.183
BXD03	0.755	0.486
BXD04	0.498	0.624
BXD05	0.611	0.835
BXD06	0.757	0.541
BXD07	0.642	0.718
BXD08	0.294	0.217
BXD09	0.652	0.484
CAST	0.48	1.178
CCcont	0.938	0.095
DS01	1.025	0.794
DS02	0.312	1.084
DS04	-0.122	0.857
DS0c	1.152	1.095
GP01	0.958	0.315
GP02	1.04	0.337
GP0c	0.714	0.223
NOD	0.858	1.025
NZO	0.653	0.306
PWK	2.593	0.513
H37Rv_KO_CtpC	0.992	0.998
H37Rv_KO_CtpD	-0.144	0.513
H37Rv_KO_Rv1272	0.774	0.917
H37Rv_KO_SugABC	0.194	0.802
H37Rv_KO_MbtN	1.627	0.278
Trans05	1.227	0.989
macrophage_unactivated	-0.205	-0.237
IL1	-0.193	-0.297
Rapamycin	0.374	-0.638
Tcell	0.202	-1.313
GMCSF	0.164	-0.198
IFNab	0.0	-0.342
IFNg	-0.219	-0.446
IFNg_GMCSF1	0.148	-0.355
Rv1432_day32	0.87	-0.293
Rv1565c_day32	-0.935	0.475
secA2_input	-1.116	-0.017
delta_Rv3594	0.0	-0.153
delta_Rv3717	-0.292	-0.175
delta_Rv3811	0.085	0.018
delta_Rv0954	-1.056	-0.249
PonA1	-0.464	-0.828
EccD1_KO	0.378	0.401
EspI_KO	0.516	0.633
PE35_KO	2.106	1.149
PPE68_KO	1.769	0.595
glycerol2	1.002	-0.461
lignocerate	1.189	-0.25
oleate	0.438	-0.659
phosphatidylcholine	1.028	-0.217
acetate	1.107	1.524
glucAc	0.709	0.339
Rv0950ko	-1.013	0.033
Rv1096ko	-0.805	-0.639
Rv3684ko	-1.336	-1.605
delta_otsA_trehalose	-0.851	-1.241