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 Rv0914c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1180/pks3	(cc=0.7249)	info on Rv1180/pks3
Rv0228/-	(cc=0.6488)	info on Rv0228/-
Rv1708/-	(cc=0.6481)	info on Rv1708/-
Rv1323/fadA4	(cc=0.6311)	info on Rv1323/fadA4
Rv1974/-	(cc=0.6282)	info on Rv1974/-
Rv1181/pks4	(cc=0.6263)	info on Rv1181/pks4
Rv0396/-	(cc=0.6246)	info on Rv0396/-
Rv0965c/-	(cc=0.6236)	info on Rv0965c/-
Rv1291c/-	(cc=0.6202)	info on Rv1291c/-
Rv0089/-	(cc=0.6182)	info on Rv0089/-

Correlation of Rv0914c/- with Rv1180/pks3

Normalized LFCs for Rv0914c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0914c/-	Rv1180/pks3
Fe_supp_jason_reseq	0.264	-0.279
low_pH_jason_reseq	0.53	2.652
NO_jason_reseq	0.289	0.0
B6_jason_reseq	0.9	2.843
MHCII_jason_reseq	1.272	3.318
Isoniazid02	-0.453	-0.345
Rifampicin4	0.157	-0.374
Ethambutol3	-0.378	0.176
Meropenem3	0.2	-0.865
Vancomycin16	0.478	0.225
Rv2680_day32	-1.695	-0.493
H37Rv_KO_MarP	0.509	0.415
hypoxia_3wks	0.319	-0.319
hypoxia_6wks	-0.065	0.234
glycerol	-0.913	-0.016
cholesterol	-0.512	0.163
AJ	0.089	0.356
Bibs02	-0.827	-0.254
Bibs02c	-0.594	0.646
BL6	-1.486	-2.892
BL6a	-1.083	-0.405
BXD01	-1.172	-2.644
BXD010	-0.826	-1.603
BXD011	-1.499	-2.421
BXD03	-1.526	-1.964
BXD04	-1.597	-1.702
BXD05	-0.898	-1.519
BXD06	-1.799	-2.271
BXD07	-1.234	-2.302
BXD08	-0.887	-2.404
BXD09	-1.291	-2.206
CAST	0.315	0.307
CCcont	-1.536	-2.242
DS01	0.811	0.371
DS02	0.625	0.298
DS04	0.682	0.292
DS0c	0.108	0.093
GP01	-0.3	-1.877
GP02	-1.785	-1.623
GP0c	-0.838	-3.264
NOD	0.291	-0.194
NZO	-0.097	0.069
PWK	0.091	0.374
H37Rv_KO_CtpC	-0.724	-1.492
H37Rv_KO_CtpD	-2.503	-2.799
H37Rv_KO_Rv1272	-0.961	-2.581
H37Rv_KO_SugABC	-0.286	-1.747
H37Rv_KO_MbtN	-1.36	-1.345
Trans05	0.021	-1.761
macrophage_unactivated	-0.556	-3.27
IL1	-0.329	-2.174
Rapamycin	-0.58	-1.534
Tcell	-1.03	-3.454
GMCSF	-0.993	-2.609
IFNab	-1.091	-2.276
IFNg	-0.73	-3.175
IFNg_GMCSF1	0.182	-1.518
Rv1432_day32	0.242	0.411
Rv1565c_day32	0.899	0.692
secA2_input	0.485	0.944
delta_Rv3594	0.528	0.2
delta_Rv3717	0.064	-1.016
delta_Rv3811	0.238	-1.142
delta_Rv0954	0.393	-1.262
PonA1	0.65	0.077
EccD1_KO	0.273	1.457
EspI_KO	0.399	-0.106
PE35_KO	-0.219	0.694
PPE68_KO	0.038	0.557
glycerol2	-0.371	-0.684
lignocerate	0.089	0.737
oleate	-0.647	-0.489
phosphatidylcholine	-0.434	-0.066
acetate	-0.047	-0.299
glucAc	0.582	-0.016
Rv0950ko	0.522	1.227
Rv1096ko	0.814	0.826
Rv3684ko	1.497	0.419
delta_otsA_trehalose	0.0	0.724