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 Rv0235c/-:

update plot	correlation	link to info on gene
Rv1058/fadD14	(cc=0.5951)	info on Rv1058/fadD14
Rv0973c/accA2	(cc=0.5835)	info on Rv0973c/accA2
Rv3148/nuoD	(cc=0.5759)	info on Rv3148/nuoD
Rv1831/-	(cc=0.5649)	info on Rv1831/-
Rv3112/moaD1	(cc=0.5599)	info on Rv3112/moaD1
Rv0742/PE_PGRS8	(cc=0.5599)	info on Rv0742/PE_PGRS8
Rv1914c/-	(cc=0.5571)	info on Rv1914c/-
Rv3511/PE_PGRS55	(cc=0.5471)	info on Rv3511/PE_PGRS55
Rv3176c/mesT	(cc=0.5412)	info on Rv3176c/mesT
Rv0644c/mmaA2	(cc=0.541)	info on Rv0644c/mmaA2

Correlation of Rv0235c/- with Rv3176c/mesT

Normalized LFCs for Rv0235c/-:
(description and provenance of datasets)

	Rv0235c/-	Rv3176c/mesT
Fe_supp_jason_reseq	-0.783	-0.336
low_pH_jason_reseq	-0.204	0.391
NO_jason_reseq	0.0	0.583
B6_jason_reseq	-0.687	-0.721
MHCII_jason_reseq	-0.63	-0.592
Isoniazid02	0.164	-0.589
Rifampicin4	0.0	-0.39
Ethambutol3	0.035	-0.204
Meropenem3	0.035	-0.744
Vancomycin16	0.0	-0.6
Rv2680_day32	0.105	0.521
H37Rv_KO_MarP	0.155	0.608
hypoxia_3wks	0.191	0.399
hypoxia_6wks	-0.443	-0.672
glycerol	0.075	0.544
cholesterol	-0.055	0.662
AJ	0.086	0.474
Bibs02	-1.13	0.605
Bibs02c	0.039	-1.234
BL6	1.27	1.063
BL6a	1.072	0.684
BXD01	1.126	0.663
BXD010	0.904	0.424
BXD011	0.508	1.035
BXD03	1.42	0.6
BXD04	1.098	0.409
BXD05	0.447	0.405
BXD06	0.863	1.316
BXD07	1.406	1.398
BXD08	0.874	1.056
BXD09	0.578	0.733
CAST	0.205	0.796
CCcont	1.15	1.05
DS01	0.044	1.016
DS02	-0.082	1.024
DS04	0.394	0.363
DS0c	-0.041	-0.284
GP01	1.319	1.134
GP02	2.076	1.321
GP0c	0.788	1.501
NOD	0.866	-0.63
NZO	0.212	0.6
PWK	0.571	-0.124
H37Rv_KO_CtpC	1.221	1.001
H37Rv_KO_CtpD	-0.661	-0.389
H37Rv_KO_Rv1272	0.451	1.826
H37Rv_KO_SugABC	1.891	1.559
H37Rv_KO_MbtN	0.462	-0.209
Trans05	1.231	1.509
macrophage_unactivated	0.805	0.426
IL1	0.0	0.442
Rapamycin	-0.592	0.669
Tcell	0.209	0.485
GMCSF	0.708	1.199
IFNab	-0.756	0.184
IFNg	-0.775	0.51
IFNg_GMCSF1	-0.666	0.468
Rv1432_day32	1.25	1.229
Rv1565c_day32	0.0	-1.21
secA2_input	-0.031	0.593
delta_Rv3594	0.909	0.393
delta_Rv3717	0.893	0.305
delta_Rv3811	0.721	1.054
delta_Rv0954	0.699	1.337
PonA1	0.278	0.592
EccD1_KO	0.0	-0.947
EspI_KO	-0.419	-0.918
PE35_KO	-0.28	0.63
PPE68_KO	0.099	0.95
glycerol2	1.1	-0.025
lignocerate	0.956	0.6
oleate	0.719	-0.299
phosphatidylcholine	0.634	0.235
acetate	0.459	1.26
glucAc	1.092	1.006
Rv0950ko	-0.292	-0.416
Rv1096ko	-0.048	-0.078
Rv3684ko	-0.373	-0.357
delta_otsA_trehalose	-1.372	-0.608