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 Rv2004c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0989c/grcC2	(cc=0.6765)	info on Rv0989c/grcC2
Rv0501/galE2	(cc=0.6697)	info on Rv0501/galE2
Rv0017c/rodA	(cc=0.6604)	info on Rv0017c/rodA
Rv0820/phoT	(cc=0.6099)	info on Rv0820/phoT
Rv0924c/mntH	(cc=0.6047)	info on Rv0924c/mntH
Rv3814c/-	(cc=0.5798)	info on Rv3814c/-
Rv1745c/idi	(cc=0.5646)	info on Rv1745c/idi
Rv0928/pstS3	(cc=0.5641)	info on Rv0928/pstS3
Rv2176/pknL	(cc=0.5634)	info on Rv2176/pknL
Rv0016c/pbpA	(cc=0.5631)	info on Rv0016c/pbpA

Correlation of Rv2004c/- with Rv0989c/grcC2

Normalized LFCs for Rv2004c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2004c/-	Rv0989c/grcC2
Fe_supp_jason_reseq	0.655	2.609
low_pH_jason_reseq	0.592	2.831
NO_jason_reseq	0.0	-0.286
B6_jason_reseq	0.526	2.136
MHCII_jason_reseq	2.331	1.703
Isoniazid02	-1.48	0.802
Rifampicin4	-1.4	0.217
Ethambutol3	-1.418	0.289
Meropenem3	-1.157	0.65
Vancomycin16	-1.149	0.032
Rv2680_day32	0.608	3.948
H37Rv_KO_MarP	-0.936	-1.853
hypoxia_3wks	0.969	-1.519
hypoxia_6wks	0.236	0.451
glycerol	2.262	5.6
cholesterol	1.492	4.139
AJ	0.598	1.239
Bibs02	0.898	4.78
Bibs02c	2.801	5.162
BL6	0.982	4.615
BL6a	2.218	5.857
BXD01	1.666	4.648
BXD010	0.372	4.045
BXD011	0.896	4.413
BXD03	0.592	3.722
BXD04	1.385	3.589
BXD05	1.344	4.055
BXD06	0.995	4.247
BXD07	1.665	4.611
BXD08	2.226	4.346
BXD09	0.958	4.485
CAST	-0.928	0.569
CCcont	1.202	4.359
DS01	2.281	6.0
DS02	1.435	6.0
DS04	2.117	5.63
DS0c	1.788	5.646
GP01	1.367	3.678
GP02	1.104	3.906
GP0c	0.996	4.303
NOD	-0.905	-0.163
NZO	-1.065	0.892
PWK	-1.189	0.689
H37Rv_KO_CtpC	1.486	2.924
H37Rv_KO_CtpD	1.305	4.282
H37Rv_KO_Rv1272	2.101	4.43
H37Rv_KO_SugABC	0.94	3.675
H37Rv_KO_MbtN	2.096	4.397
Trans05	2.198	4.538
macrophage_unactivated	1.158	0.96
IL1	-0.872	0.629
Rapamycin	0.114	-0.261
Tcell	0.58	-0.704
GMCSF	0.38	0.652
IFNab	0.834	1.802
IFNg	0.198	0.179
IFNg_GMCSF1	-0.779	-0.408
Rv1432_day32	1.51	1.675
Rv1565c_day32	0.0	4.63
secA2_input	-0.294	-0.294
delta_Rv3594	-0.171	-0.381
delta_Rv3717	0.162	0.414
delta_Rv3811	-0.123	-0.211
delta_Rv0954	-1.835	0.074
PonA1	-1.597	-0.892
EccD1_KO	-0.414	0.069
EspI_KO	0.485	0.456
PE35_KO	0.572	-0.642
PPE68_KO	1.254	-0.352
glycerol2	0.671	-3.409
lignocerate	0.381	-2.795
oleate	-1.184	-3.254
phosphatidylcholine	0.203	-3.214
acetate	0.106	1.935
glucAc	0.324	0.795
Rv0950ko	-0.087	-0.585
Rv1096ko	0.721	0.136
Rv3684ko	0.0	0.124
delta_otsA_trehalose	0.353	-1.113