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 Rv0544c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0545c/pitA	(cc=0.8747)	info on Rv0545c/pitA
Rv1339/-	(cc=0.6428)	info on Rv1339/-
Rv1008/tatD	(cc=0.5885)	info on Rv1008/tatD
Rv0019c/fhaB	(cc=0.5848)	info on Rv0019c/fhaB
Rv1780/-	(cc=0.5803)	info on Rv1780/-
Rv1640c/lysX	(cc=0.5755)	info on Rv1640c/lysX
Rv2841c/nusA	(cc=0.5742)	info on Rv2841c/nusA
Rv3821/-	(cc=0.5447)	info on Rv3821/-
Rv1058/fadD14	(cc=0.5411)	info on Rv1058/fadD14
Rv0238/-	(cc=0.5386)	info on Rv0238/-

Correlation of Rv0544c/- with Rv0545c/pitA

Normalized LFCs for Rv0544c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0544c/-	Rv0545c/pitA
Fe_supp_jason_reseq	-1.268	-1.323
low_pH_jason_reseq	-1.909	-1.251
NO_jason_reseq	-1.352	-0.281
B6_jason_reseq	-1.389	-1.496
MHCII_jason_reseq	-2.092	-2.253
Isoniazid02	1.737	0.327
Rifampicin4	1.985	1.852
Ethambutol3	2.494	2.309
Meropenem3	-0.883	-0.543
Vancomycin16	1.202	1.51
Rv2680_day32	1.357	1.535
H37Rv_KO_MarP	-0.49	-0.409
hypoxia_3wks	2.377	2.536
hypoxia_6wks	1.967	2.297
glycerol	3.296	1.556
cholesterol	0.784	1.387
AJ	-1.282	-1.913
Bibs02	-0.505	-1.24
Bibs02c	-0.577	-0.988
BL6	-1.054	0.058
BL6a	1.072	-0.047
BXD01	1.487	0.744
BXD010	1.207	0.502
BXD011	1.554	0.997
BXD03	0.295	0.031
BXD04	0.232	0.968
BXD05	1.689	1.082
BXD06	1.051	0.523
BXD07	1.162	0.953
BXD08	0.425	0.408
BXD09	0.68	0.406
CAST	-1.94	-1.668
CCcont	1.123	1.485
DS01	-0.231	-1.116
DS02	-0.124	-0.654
DS04	-0.734	-0.645
DS0c	-0.94	-1.904
GP01	0.524	1.292
GP02	0.816	0.797
GP0c	0.733	1.451
NOD	-1.627	-2.232
NZO	-1.371	-1.982
PWK	-1.495	-2.347
H37Rv_KO_CtpC	-0.093	0.554
H37Rv_KO_CtpD	0.754	-0.094
H37Rv_KO_Rv1272	1.23	-0.296
H37Rv_KO_SugABC	1.435	0.466
H37Rv_KO_MbtN	1.603	2.907
Trans05	1.718	0.228
macrophage_unactivated	-1.184	0.167
IL1	-3.675	-2.966
Rapamycin	-4.367	-2.547
Tcell	-1.222	-1.274
GMCSF	-2.213	-1.096
IFNab	-0.723	0.656
IFNg	-2.673	-1.515
IFNg_GMCSF1	-4.682	-2.316
Rv1432_day32	1.531	1.248
Rv1565c_day32	-1.76	-1.767
secA2_input	-0.28	0.235
delta_Rv3594	3.87	3.341
delta_Rv3717	3.152	2.665
delta_Rv3811	3.297	2.822
delta_Rv0954	0.866	0.811
PonA1	-0.759	-1.154
EccD1_KO	-1.687	-1.697
EspI_KO	-1.124	-0.094
PE35_KO	-1.773	-1.835
PPE68_KO	-1.456	-2.013
glycerol2	-0.524	-0.964
lignocerate	-1.784	-1.28
oleate	-1.466	-1.49
phosphatidylcholine	-2.284	-2.053
acetate	-0.773	0.831
glucAc	1.173	0.099
Rv0950ko	0.407	-0.193
Rv1096ko	-0.103	0.32
Rv3684ko	1.497	0.393
delta_otsA_trehalose	1.175	-0.671