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 Rv1498A/-:

update plot	correlation	link to info on gene
Rv2519/PE26	(cc=0.5856)	info on Rv2519/PE26
Rv2548/vapC19	(cc=0.544)	info on Rv2548/vapC19
Rv1217c/-	(cc=0.5413)	info on Rv1217c/-
Rv1729c/-	(cc=0.5307)	info on Rv1729c/-
Rv0505c/serB1	(cc=0.5054)	info on Rv0505c/serB1
Rv1548c/PPE21	(cc=0.4837)	info on Rv1548c/PPE21
Rv1583c/-	(cc=0.4738)	info on Rv1583c/-
Rv1507c/-	(cc=0.4673)	info on Rv1507c/-
Rv2735c/-	(cc=0.4619)	info on Rv2735c/-
Rv2818c/-	(cc=0.4595)	info on Rv2818c/-

Correlation of Rv1498A/- with Rv2519/PE26

Normalized LFCs for Rv1498A/-:
(description and provenance of datasets)

	Rv1498A/-	Rv2519/PE26
Fe_supp_jason_reseq	0.684	0.458
low_pH_jason_reseq	0.0	-0.074
NO_jason_reseq	0.48	0.045
B6_jason_reseq	-1.941	-0.416
MHCII_jason_reseq	-1.531	-0.542
Isoniazid02	0.15	0.412
Rifampicin4	0.474	0.387
Ethambutol3	0.409	1.008
Meropenem3	0.21	0.339
Vancomycin16	0.515	0.329
Rv2680_day32	0.973	0.166
H37Rv_KO_MarP	-0.418	0.147
hypoxia_3wks	-0.299	-0.211
hypoxia_6wks	0.015	-0.271
glycerol	-0.159	0.118
cholesterol	-0.348	0.45
AJ	-1.805	-0.047
Bibs02	-0.91	0.054
Bibs02c	-0.133	0.22
BL6	0.571	0.795
BL6a	0.56	0.446
BXD01	-0.669	0.534
BXD010	0.357	0.61
BXD011	0.505	0.328
BXD03	0.198	0.626
BXD04	-0.866	0.605
BXD05	0.76	0.477
BXD06	-0.085	0.848
BXD07	0.513	0.255
BXD08	0.116	0.667
BXD09	0.448	0.427
CAST	-0.472	0.22
CCcont	-0.341	0.582
DS01	-0.351	0.414
DS02	0.101	0.577
DS04	-0.753	0.898
DS0c	-2.861	0.189
GP01	0.436	0.489
GP02	-0.236	0.524
GP0c	0.528	0.489
NOD	-1.681	-0.14
NZO	0.139	0.559
PWK	-0.709	-0.32
H37Rv_KO_CtpC	1.027	1.638
H37Rv_KO_CtpD	2.402	1.208
H37Rv_KO_Rv1272	0.64	1.124
H37Rv_KO_SugABC	0.644	1.198
H37Rv_KO_MbtN	-0.596	0.878
Trans05	1.133	1.06
macrophage_unactivated	-0.83	0.527
IL1	-0.323	0.225
Rapamycin	-0.319	0.068
Tcell	-1.401	0.072
GMCSF	-0.227	0.441
IFNab	-0.78	-0.172
IFNg	-0.433	-0.278
IFNg_GMCSF1	-1.775	0.204
Rv1432_day32	0.374	0.029
Rv1565c_day32	1.031	0.43
secA2_input	-2.661	-0.495
delta_Rv3594	-0.28	-0.09
delta_Rv3717	-0.634	0.26
delta_Rv3811	0.326	0.126
delta_Rv0954	-0.315	0.202
PonA1	-1.297	0.129
EccD1_KO	-1.342	-0.184
EspI_KO	-1.03	0.0
PE35_KO	0.613	-0.082
PPE68_KO	-0.787	-0.525
glycerol2	-1.956	-0.468
lignocerate	-0.912	-0.16
oleate	-1.062	-0.885
phosphatidylcholine	-0.825	-0.109
acetate	0.239	-0.721
glucAc	-0.19	-0.159
Rv0950ko	-0.745	-0.096
Rv1096ko	-1.535	-0.618
Rv3684ko	-2.161	-0.524
delta_otsA_trehalose	-0.792	0.519