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 Rv1164/narI:

update plot	correlation	link to info on gene
Rv0333/-	(cc=0.5361)	info on Rv0333/-
Rv1482c/-	(cc=0.5358)	info on Rv1482c/-
Rv1215c/-	(cc=0.4841)	info on Rv1215c/-
Rv2504c/scoA	(cc=0.4741)	info on Rv2504c/scoA
Rv0671/lpqP	(cc=0.4612)	info on Rv0671/lpqP
Rv0418/lpqL	(cc=0.4505)	info on Rv0418/lpqL
Rv2643/arsC	(cc=0.4447)	info on Rv2643/arsC
Rv3310/sapM	(cc=0.4414)	info on Rv3310/sapM
Rv2389c/rpfD	(cc=0.4373)	info on Rv2389c/rpfD
Rv3238c/-	(cc=0.4321)	info on Rv3238c/-

Correlation of Rv1164/narI with Rv1215c/-

Normalized LFCs for Rv1164/narI:
(description and provenance of datasets)

	Rv1164/narI	Rv1215c/-
Fe_supp_jason_reseq	0.366	-0.272
low_pH_jason_reseq	-0.547	0.11
NO_jason_reseq	0.105	0.339
B6_jason_reseq	-1.121	-0.613
MHCII_jason_reseq	-0.146	-1.388
Isoniazid02	-0.154	0.755
Rifampicin4	-0.087	0.441
Ethambutol3	1.415	2.03
Meropenem3	3.012	0.919
Vancomycin16	-0.106	0.276
Rv2680_day32	0.145	0.171
H37Rv_KO_MarP	0.588	0.334
hypoxia_3wks	0.502	0.622
hypoxia_6wks	0.111	0.0
glycerol	-0.633	-0.127
cholesterol	-0.141	0.069
AJ	0.879	0.536
Bibs02	0.281	-0.399
Bibs02c	-0.056	-0.488
BL6	-0.306	0.418
BL6a	0.382	0.141
BXD01	-0.297	0.339
BXD010	0.261	0.527
BXD011	0.144	1.165
BXD03	-0.275	0.172
BXD04	-0.492	0.158
BXD05	0.282	0.27
BXD06	-0.101	0.515
BXD07	0.097	0.25
BXD08	0.369	0.743
BXD09	0.116	0.53
CAST	0.0	0.509
CCcont	-0.188	0.054
DS01	-0.096	0.058
DS02	-0.34	0.323
DS04	0.406	0.093
DS0c	0.085	0.079
GP01	0.591	0.529
GP02	0.459	1.583
GP0c	-0.635	0.077
NOD	-0.138	-0.172
NZO	-0.179	0.98
PWK	-0.162	0.117
H37Rv_KO_CtpC	1.16	0.721
H37Rv_KO_CtpD	0.05	0.5
H37Rv_KO_Rv1272	0.028	0.837
H37Rv_KO_SugABC	1.027	-0.024
H37Rv_KO_MbtN	-0.085	0.297
Trans05	-0.108	0.601
macrophage_unactivated	-0.025	-0.186
IL1	-0.113	-0.264
Rapamycin	0.442	-0.181
Tcell	-0.388	0.14
GMCSF	0.811	-0.037
IFNab	0.435	0.088
IFNg	0.633	-0.238
IFNg_GMCSF1	-0.27	-0.632
Rv1432_day32	-0.017	1.285
Rv1565c_day32	0.477	0.092
secA2_input	-0.225	-0.604
delta_Rv3594	-1.014	-0.194
delta_Rv3717	-1.274	-0.932
delta_Rv3811	-1.06	-0.598
delta_Rv0954	-0.337	-0.872
PonA1	-1.005	-0.016
EccD1_KO	0.855	0.457
EspI_KO	0.568	0.311
PE35_KO	0.373	0.405
PPE68_KO	0.589	0.253
glycerol2	-0.035	-0.031
lignocerate	0.086	-0.054
oleate	0.542	0.593
phosphatidylcholine	0.266	0.539
acetate	-0.241	-0.409
glucAc	-0.187	-0.644
Rv0950ko	0.163	-0.347
Rv1096ko	0.299	0.042
Rv3684ko	-0.635	-0.331
delta_otsA_trehalose	-0.57	-0.673