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 Rv2372c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0818/-	(cc=0.5947)	info on Rv0818/-
Rv2731/-	(cc=0.5933)	info on Rv2731/-
Rv0928/pstS3	(cc=0.5795)	info on Rv0928/pstS3
Rv1239c/corA	(cc=0.5771)	info on Rv1239c/corA
Rv0924c/mntH	(cc=0.5693)	info on Rv0924c/mntH
Rv0820/phoT	(cc=0.5676)	info on Rv0820/phoT
Rv1050/-	(cc=0.5574)	info on Rv1050/-
Rv0930/pstA1	(cc=0.5552)	info on Rv0930/pstA1
Rv0929/pstC2	(cc=0.5429)	info on Rv0929/pstC2
Rv1925/fadD31	(cc=0.5411)	info on Rv1925/fadD31

Correlation of Rv2372c/- with Rv0818/-

Normalized LFCs for Rv2372c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2372c/-	Rv0818/-
Fe_supp_jason_reseq	-0.376	-0.466
low_pH_jason_reseq	-0.626	1.663
NO_jason_reseq	0.213	0.299
B6_jason_reseq	0.385	2.784
MHCII_jason_reseq	0.484	0.757
Isoniazid02	-0.121	2.415
Rifampicin4	0.91	-0.95
Ethambutol3	-0.745	-0.032
Meropenem3	-0.764	-3.061
Vancomycin16	-0.289	-0.119
Rv2680_day32	0.681	2.059
H37Rv_KO_MarP	-1.425	-1.637
hypoxia_3wks	-0.096	0.367
hypoxia_6wks	1.324	2.08
glycerol	1.093	1.625
cholesterol	0.318	1.407
AJ	0.729	3.225
Bibs02	1.342	0.135
Bibs02c	-0.118	0.406
BL6	0.256	2.235
BL6a	1.043	2.921
BXD01	0.247	3.92
BXD010	1.384	3.084
BXD011	1.867	4.512
BXD03	0.84	2.542
BXD04	1.124	3.35
BXD05	1.573	2.832
BXD06	1.276	4.243
BXD07	1.716	3.141
BXD08	0.999	3.665
BXD09	0.943	2.815
CAST	1.23	5.169
CCcont	0.018	1.299
DS01	0.816	0.072
DS02	0.594	0.682
DS04	0.318	1.861
DS0c	0.622	-0.281
GP01	1.046	2.658
GP02	0.04	1.581
GP0c	0.949	4.679
NOD	-0.277	2.983
NZO	1.05	2.753
PWK	0.898	5.465
H37Rv_KO_CtpC	0.625	0.242
H37Rv_KO_CtpD	-1.145	1.609
H37Rv_KO_Rv1272	0.418	2.139
H37Rv_KO_SugABC	-2.171	3.01
H37Rv_KO_MbtN	1.453	3.581
Trans05	1.282	2.839
macrophage_unactivated	-2.225	-1.869
IL1	-0.483	-2.711
Rapamycin	-1.838	-2.888
Tcell	-0.414	0.267
GMCSF	-0.209	-2.627
IFNab	-0.692	0.925
IFNg	-0.473	-4.311
IFNg_GMCSF1	-0.742	-2.815
Rv1432_day32	1.27	4.215
Rv1565c_day32	-0.483	1.248
secA2_input	0.899	-0.106
delta_Rv3594	1.081	0.312
delta_Rv3717	1.5	2.38
delta_Rv3811	0.83	1.152
delta_Rv0954	0.815	-0.456
PonA1	0.324	-0.777
EccD1_KO	-0.401	-2.582
EspI_KO	-0.257	-1.874
PE35_KO	-0.496	-0.143
PPE68_KO	-0.339	-1.037
glycerol2	-1.746	-1.372
lignocerate	-0.732	-0.48
oleate	-0.785	-2.42
phosphatidylcholine	-1.548	-0.944
acetate	0.126	-0.266
glucAc	0.124	-0.073
Rv0950ko	0.157	-1.894
Rv1096ko	0.09	0.012
Rv3684ko	1.67	0.57
delta_otsA_trehalose	-1.712	-0.379