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 Rv2978c/-:

update plot	correlation	link to info on gene
Rv1422/-	(cc=0.5113)	info on Rv1422/-
Rv2270/lppN	(cc=0.5113)	info on Rv2270/lppN
Rv1962A/vapB35	(cc=0.51)	info on Rv1962A/vapB35
Rv3768/-	(cc=0.5032)	info on Rv3768/-
Rv1946c/lppG	(cc=0.4917)	info on Rv1946c/lppG
Rv0581/vapB26	(cc=0.4892)	info on Rv0581/vapB26
Rv1079/metB	(cc=0.4711)	info on Rv1079/metB
Rv2673/aftC	(cc=0.4682)	info on Rv2673/aftC
Rv1225c/-	(cc=0.4676)	info on Rv1225c/-
Rv2980/-	(cc=0.4671)	info on Rv2980/-

Correlation of Rv2978c/- with Rv1079/metB

Normalized LFCs for Rv2978c/-:
(description and provenance of datasets)

	Rv2978c/-	Rv1079/metB
Fe_supp_jason_reseq	-0.052	0.647
low_pH_jason_reseq	-0.261	-0.433
NO_jason_reseq	-0.221	-1.733
B6_jason_reseq	-1.303	-0.523
MHCII_jason_reseq	-1.184	-1.319
Isoniazid02	0.611	1.083
Rifampicin4	0.753	0.466
Ethambutol3	1.126	0.364
Meropenem3	0.223	0.29
Vancomycin16	-0.146	0.377
Rv2680_day32	-0.586	0.109
H37Rv_KO_MarP	0.179	0.0
hypoxia_3wks	0.211	0.534
hypoxia_6wks	0.762	-0.182
glycerol	0.0	-0.932
cholesterol	0.526	0.614
AJ	0.605	0.044
Bibs02	-0.49	-0.069
Bibs02c	0.377	0.039
BL6	0.505	0.918
BL6a	0.517	0.432
BXD01	0.473	0.343
BXD010	0.334	0.136
BXD011	0.445	-0.233
BXD03	1.353	0.639
BXD04	0.341	0.787
BXD05	-0.054	0.773
BXD06	0.263	0.208
BXD07	1.436	0.621
BXD08	0.367	0.0
BXD09	0.491	0.664
CAST	0.377	-0.871
CCcont	0.478	1.35
DS01	0.387	-0.044
DS02	-0.944	-0.654
DS04	-1.154	-1.012
DS0c	-0.696	0.506
GP01	0.257	0.122
GP02	0.627	-0.701
GP0c	0.169	0.303
NOD	0.0	-0.042
NZO	-0.806	-0.551
PWK	0.418	0.142
H37Rv_KO_CtpC	0.32	1.146
H37Rv_KO_CtpD	0.786	1.041
H37Rv_KO_Rv1272	-0.086	-0.611
H37Rv_KO_SugABC	1.188	-0.755
H37Rv_KO_MbtN	-0.809	1.662
Trans05	0.38	-0.393
macrophage_unactivated	0.922	0.426
IL1	0.234	-0.653
Rapamycin	-0.7	-0.147
Tcell	-0.619	-0.371
GMCSF	0.0	-0.301
IFNab	-0.2	0.698
IFNg	-0.609	0.0
IFNg_GMCSF1	0.342	0.286
Rv1432_day32	0.541	-0.43
Rv1565c_day32	-3.101	-2.263
secA2_input	0.095	0.348
delta_Rv3594	1.892	1.758
delta_Rv3717	0.165	0.812
delta_Rv3811	0.617	1.08
delta_Rv0954	1.336	1.114
PonA1	1.051	1.012
EccD1_KO	2.601	-0.122
EspI_KO	2.524	0.0
PE35_KO	2.018	0.543
PPE68_KO	2.323	0.058
glycerol2	-0.112	-0.343
lignocerate	-0.51	-1.108
oleate	0.159	-0.583
phosphatidylcholine	0.0	-1.615
acetate	-1.358	-1.277
glucAc	-1.16	-0.771
Rv0950ko	0.0	1.049
Rv1096ko	0.76	0.808
Rv3684ko	0.219	1.182
delta_otsA_trehalose	-0.659	0.064