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 Rv2896c/-:

update plot	correlation	link to info on gene
Rv1961/-	(cc=0.4625)	info on Rv1961/-
Rv0976c/-	(cc=0.4607)	info on Rv0976c/-
Rv2159c/-	(cc=0.4461)	info on Rv2159c/-
Rv3292/-	(cc=0.446)	info on Rv3292/-
Rv2012/-	(cc=0.426)	info on Rv2012/-
Rv0897c/-	(cc=0.4057)	info on Rv0897c/-
Rv0992c/-	(cc=0.404)	info on Rv0992c/-
Rv0994/moeA1	(cc=0.4033)	info on Rv0994/moeA1
Rv1452c/PE_PGRS28	(cc=0.3929)	info on Rv1452c/PE_PGRS28
Rv0222/echA1	(cc=0.3881)	info on Rv0222/echA1

Correlation of Rv2896c/- with Rv0897c/-

Normalized LFCs for Rv2896c/-:
(description and provenance of datasets)

	Rv2896c/-	Rv0897c/-
Fe_supp_jason_reseq	-0.685	-0.717
low_pH_jason_reseq	-0.932	-0.95
NO_jason_reseq	0.263	-0.446
B6_jason_reseq	-0.482	-1.545
MHCII_jason_reseq	-0.754	-0.658
Isoniazid02	0.764	-0.391
Rifampicin4	-0.181	0.512
Ethambutol3	0.188	-0.204
Meropenem3	0.114	-0.322
Vancomycin16	0.058	0.26
Rv2680_day32	-0.456	0.517
H37Rv_KO_MarP	-0.051	0.127
hypoxia_3wks	-0.287	-0.821
hypoxia_6wks	-0.624	-0.43
glycerol	1.546	0.432
cholesterol	0.503	0.147
AJ	-0.128	-0.141
Bibs02	0.654	0.494
Bibs02c	-0.115	0.406
BL6	0.637	0.616
BL6a	0.103	0.069
BXD01	-0.299	-0.544
BXD010	-0.223	-0.197
BXD011	-0.269	0.116
BXD03	-0.562	0.123
BXD04	0.256	0.057
BXD05	0.261	0.261
BXD06	-0.173	0.046
BXD07	0.082	0.048
BXD08	0.117	-0.098
BXD09	-0.182	-0.235
CAST	-0.108	-0.055
CCcont	-0.035	-0.425
DS01	0.674	-0.267
DS02	0.767	-0.052
DS04	0.706	1.583
DS0c	0.607	0.464
GP01	0.022	0.285
GP02	0.98	2.28
GP0c	0.465	-0.047
NOD	0.792	0.0
NZO	-0.078	0.246
PWK	-0.413	0.719
H37Rv_KO_CtpC	0.386	-0.141
H37Rv_KO_CtpD	0.78	0.732
H37Rv_KO_Rv1272	-0.435	0.033
H37Rv_KO_SugABC	-1.474	0.321
H37Rv_KO_MbtN	0.529	0.024
Trans05	-0.377	-1.111
macrophage_unactivated	0.18	-0.713
IL1	0.516	0.101
Rapamycin	0.206	0.141
Tcell	-0.329	-0.782
GMCSF	-0.351	0.517
IFNab	-0.121	-0.562
IFNg	0.489	-0.224
IFNg_GMCSF1	0.179	0.386
Rv1432_day32	0.738	0.048
Rv1565c_day32	0.491	-0.75
secA2_input	0.435	1.035
delta_Rv3594	-0.286	-0.904
delta_Rv3717	0.083	-1.275
delta_Rv3811	0.0	-0.418
delta_Rv0954	-0.261	-0.84
PonA1	-0.485	0.155
EccD1_KO	-0.145	0.329
EspI_KO	-0.083	-0.359
PE35_KO	0.545	-0.05
PPE68_KO	0.518	0.32
glycerol2	-0.303	-0.716
lignocerate	0.558	0.09
oleate	-0.072	-1.686
phosphatidylcholine	0.31	-0.389
acetate	0.472	0.201
glucAc	0.304	0.076
Rv0950ko	0.172	0.709
Rv1096ko	0.829	1.068
Rv3684ko	0.576	0.291
delta_otsA_trehalose	-0.416	0.095