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 Rv2735c/-

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

	Rv1498A/-	Rv2735c/-
Fe_supp_jason_reseq	0.684	0.731
low_pH_jason_reseq	0.0	0.418
NO_jason_reseq	0.48	0.249
B6_jason_reseq	-1.941	-0.614
MHCII_jason_reseq	-1.531	-0.111
Isoniazid02	0.15	-0.067
Rifampicin4	0.474	0.192
Ethambutol3	0.409	-0.068
Meropenem3	0.21	0.434
Vancomycin16	0.515	0.048
Rv2680_day32	0.973	0.554
H37Rv_KO_MarP	-0.418	-0.341
hypoxia_3wks	-0.299	0.315
hypoxia_6wks	0.015	0.395
glycerol	-0.159	0.089
cholesterol	-0.348	-0.343
AJ	-1.805	0.671
Bibs02	-0.91	0.631
Bibs02c	-0.133	0.58
BL6	0.571	0.952
BL6a	0.56	1.522
BXD01	-0.669	0.742
BXD010	0.357	1.552
BXD011	0.505	1.348
BXD03	0.198	1.483
BXD04	-0.866	1.288
BXD05	0.76	1.268
BXD06	-0.085	1.007
BXD07	0.513	1.504
BXD08	0.116	0.557
BXD09	0.448	1.226
CAST	-0.472	0.586
CCcont	-0.341	0.515
DS01	-0.351	0.941
DS02	0.101	0.526
DS04	-0.753	1.122
DS0c	-2.861	0.335
GP01	0.436	1.8
GP02	-0.236	1.821
GP0c	0.528	1.168
NOD	-1.681	0.571
NZO	0.139	0.03
PWK	-0.709	0.567
H37Rv_KO_CtpC	1.027	1.627
H37Rv_KO_CtpD	2.402	1.492
H37Rv_KO_Rv1272	0.64	1.96
H37Rv_KO_SugABC	0.644	0.664
H37Rv_KO_MbtN	-0.596	1.849
Trans05	1.133	1.918
macrophage_unactivated	-0.83	0.562
IL1	-0.323	0.4
Rapamycin	-0.319	0.107
Tcell	-1.401	0.44
GMCSF	-0.227	-0.259
IFNab	-0.78	0.441
IFNg	-0.433	0.214
IFNg_GMCSF1	-1.775	0.591
Rv1432_day32	0.374	0.557
Rv1565c_day32	1.031	0.257
secA2_input	-2.661	-0.379
delta_Rv3594	-0.28	1.195
delta_Rv3717	-0.634	0.39
delta_Rv3811	0.326	0.9
delta_Rv0954	-0.315	0.236
PonA1	-1.297	0.426
EccD1_KO	-1.342	-0.526
EspI_KO	-1.03	-0.154
PE35_KO	0.613	-0.525
PPE68_KO	-0.787	-0.48
glycerol2	-1.956	-0.359
lignocerate	-0.912	-0.233
oleate	-1.062	-0.098
phosphatidylcholine	-0.825	-0.08
acetate	0.239	-0.214
glucAc	-0.19	-0.488
Rv0950ko	-0.745	0.528
Rv1096ko	-1.535	-0.48
Rv3684ko	-2.161	-0.147
delta_otsA_trehalose	-0.792	0.357