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 Rv3821/-:

update plot	correlation	link to info on gene
Rv3823c/mmpL8	(cc=0.8017)	info on Rv3823c/mmpL8
Rv0644c/mmaA2	(cc=0.6431)	info on Rv0644c/mmaA2
Rv0473/-	(cc=0.614)	info on Rv0473/-
Rv1058/fadD14	(cc=0.6105)	info on Rv1058/fadD14
Rv0502/-	(cc=0.6044)	info on Rv0502/-
Rv1640c/lysX	(cc=0.596)	info on Rv1640c/lysX
Rv1008/tatD	(cc=0.5932)	info on Rv1008/tatD
Rv1543/-	(cc=0.593)	info on Rv1543/-
Rv3146/nuoB	(cc=0.5849)	info on Rv3146/nuoB
Rv0181c/-	(cc=0.584)	info on Rv0181c/-

Correlation of Rv3821/- with Rv0473/-

Normalized LFCs for Rv3821/-:
(description and provenance of datasets)

	Rv3821/-	Rv0473/-
Fe_supp_jason_reseq	0.204	0.0
low_pH_jason_reseq	0.361	-0.89
NO_jason_reseq	1.334	1.423
B6_jason_reseq	-1.143	0.131
MHCII_jason_reseq	-0.348	0.389
Isoniazid02	0.016	-0.725
Rifampicin4	0.563	-0.149
Ethambutol3	-0.344	0.198
Meropenem3	1.73	0.93
Vancomycin16	0.653	-0.419
Rv2680_day32	3.832	2.661
H37Rv_KO_MarP	-0.571	0.428
hypoxia_3wks	-0.514	0.961
hypoxia_6wks	0.908	1.036
glycerol	-0.23	-0.275
cholesterol	0.042	-0.604
AJ	-0.447	-0.247
Bibs02	0.514	-0.526
Bibs02c	1.05	0.629
BL6	2.286	0.909
BL6a	2.042	1.469
BXD01	2.706	1.895
BXD010	2.187	1.942
BXD011	2.819	2.878
BXD03	1.409	0.943
BXD04	1.611	1.926
BXD05	2.385	1.727
BXD06	2.108	2.558
BXD07	2.655	2.011
BXD08	1.878	1.493
BXD09	3.365	2.018
CAST	-1.88	-0.716
CCcont	1.367	0.507
DS01	1.008	-0.638
DS02	0.871	-0.128
DS04	0.573	0.219
DS0c	1.116	0.112
GP01	0.892	2.656
GP02	0.016	3.016
GP0c	1.028	2.1
NOD	-0.067	-0.197
NZO	0.256	0.871
PWK	-0.622	1.182
H37Rv_KO_CtpC	0.766	0.271
H37Rv_KO_CtpD	1.965	0.745
H37Rv_KO_Rv1272	2.215	0.794
H37Rv_KO_SugABC	1.93	0.687
H37Rv_KO_MbtN	2.409	1.304
Trans05	2.097	1.506
macrophage_unactivated	-0.925	-0.417
IL1	-2.684	-0.16
Rapamycin	-1.264	0.402
Tcell	-2.434	0.671
GMCSF	-1.434	1.088
IFNab	0.958	0.145
IFNg	-1.922	0.7
IFNg_GMCSF1	-1.596	0.289
Rv1432_day32	6.0	4.594
Rv1565c_day32	-1.827	0.291
secA2_input	-0.864	-0.122
delta_Rv3594	0.739	-0.381
delta_Rv3717	2.095	1.081
delta_Rv3811	1.447	0.476
delta_Rv0954	0.062	-0.379
PonA1	-0.208	0.048
EccD1_KO	-0.816	0.5
EspI_KO	-0.374	-0.428
PE35_KO	-0.799	-0.438
PPE68_KO	-0.761	-1.046
glycerol2	2.208	0.555
lignocerate	0.826	0.317
oleate	2.711	0.939
phosphatidylcholine	0.458	0.402
acetate	0.168	-0.841
glucAc	0.249	1.132
Rv0950ko	0.467	0.407
Rv1096ko	0.404	-0.416
Rv3684ko	2.826	0.016
delta_otsA_trehalose	-0.335	-0.326