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 Rv0891c/-:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4676)	info on Rv0691c/-
Rv0669c/-	(cc=0.4534)	info on Rv0669c/-
Rv3386/-	(cc=0.4383)	info on Rv3386/-
Rv3844/-	(cc=0.4341)	info on Rv3844/-
Rv3529c/-	(cc=0.4236)	info on Rv3529c/-
Rv1509/-	(cc=0.4143)	info on Rv1509/-
Rv0920c/-	(cc=0.4107)	info on Rv0920c/-
Rv2408/PE24	(cc=0.4088)	info on Rv2408/PE24
Rv0886/fprB	(cc=0.4013)	info on Rv0886/fprB
Rv3348/-	(cc=0.3991)	info on Rv3348/-

Correlation of Rv0891c/- with Rv3348/-

Normalized LFCs for Rv0891c/-:
(description and provenance of datasets)

	Rv0891c/-	Rv3348/-
Fe_supp_jason_reseq	1.124	0.878
low_pH_jason_reseq	-0.427	1.37
NO_jason_reseq	-0.037	0.977
B6_jason_reseq	0.924	1.141
MHCII_jason_reseq	0.531	-0.342
Isoniazid02	-0.215	0.828
Rifampicin4	0.187	-0.417
Ethambutol3	0.668	0.133
Meropenem3	-0.201	1.678
Vancomycin16	0.313	1.39
Rv2680_day32	-0.559	-1.007
H37Rv_KO_MarP	1.398	0.045
hypoxia_3wks	-0.231	-0.167
hypoxia_6wks	0.2	-0.317
glycerol	-0.312	-0.111
cholesterol	2.321	4.567
AJ	-0.232	0.629
Bibs02	-0.064	2.421
Bibs02c	0.282	1.281
BL6	0.414	-0.201
BL6a	0.646	-0.344
BXD01	0.418	0.909
BXD010	0.662	0.88
BXD011	0.447	0.014
BXD03	1.007	-0.269
BXD04	0.397	-0.11
BXD05	0.928	0.561
BXD06	0.475	-0.283
BXD07	0.693	0.305
BXD08	0.721	-0.372
BXD09	0.673	-0.58
CAST	0.377	1.53
CCcont	0.574	0.765
DS01	-0.185	0.915
DS02	0.331	1.733
DS04	0.013	0.082
DS0c	-0.387	1.235
GP01	0.121	0.622
GP02	0.117	-0.292
GP0c	-0.525	-0.667
NOD	1.359	1.855
NZO	0.244	-0.889
PWK	-0.139	-1.339
H37Rv_KO_CtpC	0.266	0.593
H37Rv_KO_CtpD	0.671	0.395
H37Rv_KO_Rv1272	0.129	-2.418
H37Rv_KO_SugABC	-1.442	-2.091
H37Rv_KO_MbtN	-0.416	-1.516
Trans05	-0.191	0.838
macrophage_unactivated	-0.183	0.543
IL1	0.237	0.047
Rapamycin	0.114	1.498
Tcell	0.544	0.746
GMCSF	-0.615	0.335
IFNab	-0.039	0.197
IFNg	0.682	2.023
IFNg_GMCSF1	-0.041	-0.38
Rv1432_day32	0.559	-0.46
Rv1565c_day32	0.788	0.839
secA2_input	-1.207	-0.767
delta_Rv3594	0.575	0.717
delta_Rv3717	-0.853	0.487
delta_Rv3811	-0.407	-0.458
delta_Rv0954	-0.092	1.68
PonA1	-0.501	0.238
EccD1_KO	-0.474	0.21
EspI_KO	0.69	0.607
PE35_KO	0.592	0.187
PPE68_KO	0.518	1.315
glycerol2	0.824	-0.095
lignocerate	0.981	0.468
oleate	0.776	-0.557
phosphatidylcholine	0.964	0.179
acetate	0.409	0.5
glucAc	0.438	0.245
Rv0950ko	-0.208	0.274
Rv1096ko	0.223	0.775
Rv3684ko	-0.255	-1.1
delta_otsA_trehalose	-0.979	-0.515