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 Rv2519/PE26:

update plot	correlation	link to info on gene
Rv1918c/PPE35	(cc=0.7025)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.6526)	info on Rv2735c/-
Rv2543/lppA	(cc=0.6495)	info on Rv2543/lppA
Rv0149/-	(cc=0.6362)	info on Rv0149/-
Rv1059/-	(cc=0.6192)	info on Rv1059/-
Rv1504c/-	(cc=0.6143)	info on Rv1504c/-
Rv1633/uvrB	(cc=0.6114)	info on Rv1633/uvrB
Rv3750c/-	(cc=0.5945)	info on Rv3750c/-
Rv1498A/-	(cc=0.5856)	info on Rv1498A/-
Rv2161c/-	(cc=0.578)	info on Rv2161c/-

Correlation of Rv2519/PE26 with Rv1498A/-

Normalized LFCs for Rv2519/PE26:
(description and provenance of datasets)

	Rv2519/PE26	Rv1498A/-
Fe_supp_jason_reseq	0.458	0.684
low_pH_jason_reseq	-0.074	0.0
NO_jason_reseq	0.045	0.48
B6_jason_reseq	-0.416	-1.941
MHCII_jason_reseq	-0.542	-1.531
Isoniazid02	0.412	0.15
Rifampicin4	0.387	0.474
Ethambutol3	1.008	0.409
Meropenem3	0.339	0.21
Vancomycin16	0.329	0.515
Rv2680_day32	0.166	0.973
H37Rv_KO_MarP	0.147	-0.418
hypoxia_3wks	-0.211	-0.299
hypoxia_6wks	-0.271	0.015
glycerol	0.118	-0.159
cholesterol	0.45	-0.348
AJ	-0.047	-1.805
Bibs02	0.054	-0.91
Bibs02c	0.22	-0.133
BL6	0.795	0.571
BL6a	0.446	0.56
BXD01	0.534	-0.669
BXD010	0.61	0.357
BXD011	0.328	0.505
BXD03	0.626	0.198
BXD04	0.605	-0.866
BXD05	0.477	0.76
BXD06	0.848	-0.085
BXD07	0.255	0.513
BXD08	0.667	0.116
BXD09	0.427	0.448
CAST	0.22	-0.472
CCcont	0.582	-0.341
DS01	0.414	-0.351
DS02	0.577	0.101
DS04	0.898	-0.753
DS0c	0.189	-2.861
GP01	0.489	0.436
GP02	0.524	-0.236
GP0c	0.489	0.528
NOD	-0.14	-1.681
NZO	0.559	0.139
PWK	-0.32	-0.709
H37Rv_KO_CtpC	1.638	1.027
H37Rv_KO_CtpD	1.208	2.402
H37Rv_KO_Rv1272	1.124	0.64
H37Rv_KO_SugABC	1.198	0.644
H37Rv_KO_MbtN	0.878	-0.596
Trans05	1.06	1.133
macrophage_unactivated	0.527	-0.83
IL1	0.225	-0.323
Rapamycin	0.068	-0.319
Tcell	0.072	-1.401
GMCSF	0.441	-0.227
IFNab	-0.172	-0.78
IFNg	-0.278	-0.433
IFNg_GMCSF1	0.204	-1.775
Rv1432_day32	0.029	0.374
Rv1565c_day32	0.43	1.031
secA2_input	-0.495	-2.661
delta_Rv3594	-0.09	-0.28
delta_Rv3717	0.26	-0.634
delta_Rv3811	0.126	0.326
delta_Rv0954	0.202	-0.315
PonA1	0.129	-1.297
EccD1_KO	-0.184	-1.342
EspI_KO	0.0	-1.03
PE35_KO	-0.082	0.613
PPE68_KO	-0.525	-0.787
glycerol2	-0.468	-1.956
lignocerate	-0.16	-0.912
oleate	-0.885	-1.062
phosphatidylcholine	-0.109	-0.825
acetate	-0.721	0.239
glucAc	-0.159	-0.19
Rv0950ko	-0.096	-0.745
Rv1096ko	-0.618	-1.535
Rv3684ko	-0.524	-2.161
delta_otsA_trehalose	0.519	-0.792