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 Rv0647c/-:

update plot	correlation	link to info on gene
Rv0473/-	(cc=0.5503)	info on Rv0473/-
Rv0742/PE_PGRS8	(cc=0.5395)	info on Rv0742/PE_PGRS8
Rv1128c/-	(cc=0.5296)	info on Rv1128c/-
Rv1787/PPE25	(cc=0.5248)	info on Rv1787/PPE25
Rv0148/-	(cc=0.5141)	info on Rv0148/-
Rv3020c/esxS	(cc=0.5091)	info on Rv3020c/esxS
Rv2584c/apt	(cc=0.501)	info on Rv2584c/apt
Rv3840/-	(cc=0.4988)	info on Rv3840/-
Rv0844c/narL	(cc=0.4885)	info on Rv0844c/narL
Rv1622c/cydB	(cc=0.4879)	info on Rv1622c/cydB

Correlation of Rv0647c/- with Rv0473/-

Normalized LFCs for Rv0647c/-:
(description and provenance of datasets)

	Rv0647c/-	Rv0473/-
Fe_supp_jason_reseq	-0.965	0.0
low_pH_jason_reseq	-0.893	-0.89
NO_jason_reseq	0.263	1.423
B6_jason_reseq	-0.411	0.131
MHCII_jason_reseq	-1.082	0.389
Isoniazid02	-0.678	-0.725
Rifampicin4	0.176	-0.149
Ethambutol3	-0.283	0.198
Meropenem3	0.68	0.93
Vancomycin16	0.377	-0.419
Rv2680_day32	1.282	2.661
H37Rv_KO_MarP	0.083	0.428
hypoxia_3wks	0.594	0.961
hypoxia_6wks	0.593	1.036
glycerol	0.401	-0.275
cholesterol	-0.545	-0.604
AJ	-0.57	-0.247
Bibs02	0.789	-0.526
Bibs02c	-0.45	0.629
BL6	-0.232	0.909
BL6a	0.27	1.469
BXD01	0.828	1.895
BXD010	-0.096	1.942
BXD011	1.056	2.878
BXD03	0.805	0.943
BXD04	0.494	1.926
BXD05	1.346	1.727
BXD06	1.106	2.558
BXD07	0.382	2.011
BXD08	2.15	1.493
BXD09	0.25	2.018
CAST	-0.174	-0.716
CCcont	-0.977	0.507
DS01	0.166	-0.638
DS02	-0.468	-0.128
DS04	0.424	0.219
DS0c	0.431	0.112
GP01	2.005	2.656
GP02	1.541	3.016
GP0c	1.998	2.1
NOD	-1.181	-0.197
NZO	0.14	0.871
PWK	0.75	1.182
H37Rv_KO_CtpC	-0.45	0.271
H37Rv_KO_CtpD	1.267	0.745
H37Rv_KO_Rv1272	0.586	0.794
H37Rv_KO_SugABC	-0.901	0.687
H37Rv_KO_MbtN	1.806	1.304
Trans05	0.665	1.506
macrophage_unactivated	2.25	-0.417
IL1	0.955	-0.16
Rapamycin	1.182	0.402
Tcell	1.254	0.671
GMCSF	2.131	1.088
IFNab	0.774	0.145
IFNg	0.861	0.7
IFNg_GMCSF1	1.012	0.289
Rv1432_day32	1.669	4.594
Rv1565c_day32	0.359	0.291
secA2_input	0.606	-0.122
delta_Rv3594	-1.41	-0.381
delta_Rv3717	-0.077	1.081
delta_Rv3811	-0.578	0.476
delta_Rv0954	-1.143	-0.379
PonA1	-1.249	0.048
EccD1_KO	-0.099	0.5
EspI_KO	-0.536	-0.428
PE35_KO	-0.359	-0.438
PPE68_KO	-0.394	-1.046
glycerol2	-0.319	0.555
lignocerate	-0.229	0.317
oleate	0.525	0.939
phosphatidylcholine	-0.319	0.402
acetate	0.223	-0.841
glucAc	-0.569	1.132
Rv0950ko	-0.603	0.407
Rv1096ko	-0.793	-0.416
Rv3684ko	-1.189	0.016
delta_otsA_trehalose	-2.372	-0.326