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 Rv1290A/-:

update plot	correlation	link to info on gene
Rv1725c/-	(cc=0.5786)	info on Rv1725c/-
Rv2613c/-	(cc=0.5346)	info on Rv2613c/-
Rv0089/-	(cc=0.5223)	info on Rv0089/-
Rv3167c/-	(cc=0.522)	info on Rv3167c/-
Rv2019/-	(cc=0.5198)	info on Rv2019/-
Rv2517c/-	(cc=0.5142)	info on Rv2517c/-
Rv0396/-	(cc=0.5124)	info on Rv0396/-
Rv2405/-	(cc=0.5115)	info on Rv2405/-
Rv3056/dinP	(cc=0.5052)	info on Rv3056/dinP
Rv1999c/-	(cc=0.5003)	info on Rv1999c/-

Correlation of Rv1290A/- with Rv0396/-

Normalized LFCs for Rv1290A/-:
(description and provenance of datasets)

	Rv1290A/-	Rv0396/-
Fe_supp_jason_reseq	1.441	-1.018
low_pH_jason_reseq	-1.282	-0.512
NO_jason_reseq	0.11	0.0
B6_jason_reseq	-0.771	-0.679
MHCII_jason_reseq	0.935	0.783
Isoniazid02	-0.685	-0.074
Rifampicin4	-0.13	0.311
Ethambutol3	-0.349	0.218
Meropenem3	1.52	0.204
Vancomycin16	-0.194	0.427
Rv2680_day32	-0.359	-1.194
H37Rv_KO_MarP	0.025	-0.031
hypoxia_3wks	-0.339	-0.112
hypoxia_6wks	-1.539	-0.643
glycerol	-1.624	-2.992
cholesterol	-0.218	-1.623
AJ	-0.602	-0.165
Bibs02	-0.223	0.162
Bibs02c	-0.796	0.717
BL6	-0.1	-1.678
BL6a	-1.538	-1.111
BXD01	-1.563	-2.09
BXD010	-0.559	0.323
BXD011	-1.384	-1.109
BXD03	-0.617	-1.796
BXD04	-1.76	-2.419
BXD05	-2.96	-0.557
BXD06	-1.187	-0.233
BXD07	-1.505	-1.014
BXD08	-2.361	-1.97
BXD09	-1.382	-0.848
CAST	-0.06	0.537
CCcont	-0.937	-1.983
DS01	-1.032	-0.39
DS02	-0.993	-0.654
DS04	0.119	0.538
DS0c	-1.215	0.27
GP01	-0.574	-1.743
GP02	2.507	-1.383
GP0c	-0.337	-1.412
NOD	-0.371	0.329
NZO	-1.835	0.0
PWK	0.365	0.872
H37Rv_KO_CtpC	0.743	-0.98
H37Rv_KO_CtpD	-2.438	-2.545
H37Rv_KO_Rv1272	-1.022	0.491
H37Rv_KO_SugABC	1.676	-1.11
H37Rv_KO_MbtN	1.666	-1.051
Trans05	0.298	0.758
macrophage_unactivated	-1.259	-0.972
IL1	0.552	-0.507
Rapamycin	0.436	0.242
Tcell	-0.166	-1.095
GMCSF	-1.415	-0.927
IFNab	-2.331	-1.732
IFNg	-0.422	0.436
IFNg_GMCSF1	-0.496	-0.496
Rv1432_day32	0.0	-0.016
Rv1565c_day32	0.556	2.267
secA2_input	-1.67	-0.725
delta_Rv3594	0.092	-0.052
delta_Rv3717	-0.96	-0.088
delta_Rv3811	-0.29	-0.479
delta_Rv0954	-0.596	0.394
PonA1	-0.439	0.601
EccD1_KO	-0.086	-0.773
EspI_KO	1.791	-0.074
PE35_KO	2.345	0.324
PPE68_KO	1.955	-0.384
glycerol2	1.401	1.233
lignocerate	1.386	1.287
oleate	0.0	-1.337
phosphatidylcholine	1.594	1.0
acetate	2.79	2.73
glucAc	1.825	1.378
Rv0950ko	1.251	1.173
Rv1096ko	1.028	1.695
Rv3684ko	2.021	1.143
delta_otsA_trehalose	-1.964	-0.15