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 Rv3112/moaD1

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

	Rv0235c/-	Rv3112/moaD1
Fe_supp_jason_reseq	-0.783	-1.192
low_pH_jason_reseq	-0.204	-1.116
NO_jason_reseq	0.0	-0.291
B6_jason_reseq	-0.687	-1.59
MHCII_jason_reseq	-0.63	-1.4
Isoniazid02	0.164	0.231
Rifampicin4	0.0	-0.872
Ethambutol3	0.035	-0.585
Meropenem3	0.035	-0.981
Vancomycin16	0.0	-0.698
Rv2680_day32	0.105	1.416
H37Rv_KO_MarP	0.155	-1.295
hypoxia_3wks	0.191	-0.255
hypoxia_6wks	-0.443	1.265
glycerol	0.075	0.0
cholesterol	-0.055	0.0
AJ	0.086	0.0
Bibs02	-1.13	0.183
Bibs02c	0.039	0.0
BL6	1.27	4.393
BL6a	1.072	1.633
BXD01	1.126	2.779
BXD010	0.904	2.376
BXD011	0.508	1.742
BXD03	1.42	3.182
BXD04	1.098	1.854
BXD05	0.447	0.661
BXD06	0.863	2.326
BXD07	1.406	1.854
BXD08	0.874	3.499
BXD09	0.578	2.209
CAST	0.205	1.131
CCcont	1.15	2.897
DS01	0.044	0.45
DS02	-0.082	0.0
DS04	0.394	0.533
DS0c	-0.041	0.0
GP01	1.319	0.0
GP02	2.076	0.083
GP0c	0.788	0.0
NOD	0.866	5.261
NZO	0.212	0.0
PWK	0.571	0.0
H37Rv_KO_CtpC	1.221	2.765
H37Rv_KO_CtpD	-0.661	2.35
H37Rv_KO_Rv1272	0.451	0.141
H37Rv_KO_SugABC	1.891	2.768
H37Rv_KO_MbtN	0.462	0.103
Trans05	1.231	1.251
macrophage_unactivated	0.805	0.407
IL1	0.0	-1.056
Rapamycin	-0.592	0.135
Tcell	0.209	2.877
GMCSF	0.708	-1.79
IFNab	-0.756	-2.273
IFNg	-0.775	-1.625
IFNg_GMCSF1	-0.666	-2.363
Rv1432_day32	1.25	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.031	1.032
delta_Rv3594	0.909	2.109
delta_Rv3717	0.893	0.0
delta_Rv3811	0.721	1.787
delta_Rv0954	0.699	0.0
PonA1	0.278	0.0
EccD1_KO	0.0	0.865
EspI_KO	-0.419	0.394
PE35_KO	-0.28	0.589
PPE68_KO	0.099	2.31
glycerol2	1.1	1.941
lignocerate	0.956	2.2
oleate	0.719	-1.202
phosphatidylcholine	0.634	1.982
acetate	0.459	2.251
glucAc	1.092	2.481
Rv0950ko	-0.292	-3.251
Rv1096ko	-0.048	-1.028
Rv3684ko	-0.373	-3.033
delta_otsA_trehalose	-1.372	0.378