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 Rv1530/adh:

update plot	correlation	link to info on gene
Rv1526c/-	(cc=0.533)	info on Rv1526c/-
Rv1175c/fadH	(cc=0.44)	info on Rv1175c/fadH
Rv2575/-	(cc=0.4046)	info on Rv2575/-
Rv1548c/PPE21	(cc=0.3944)	info on Rv1548c/PPE21
Rv1167c/-	(cc=0.394)	info on Rv1167c/-
Rv0254c/cobU	(cc=0.3911)	info on Rv0254c/cobU
Rv2147c/-	(cc=0.3906)	info on Rv2147c/-
Rv3545c/cyp125	(cc=0.3814)	info on Rv3545c/cyp125
Rv2038c/-	(cc=0.38)	info on Rv2038c/-
Rv2345/-	(cc=0.3752)	info on Rv2345/-

Correlation of Rv1530/adh with Rv3545c/cyp125

Normalized LFCs for Rv1530/adh:
(description and provenance of datasets)

	Rv1530/adh	Rv3545c/cyp125
Fe_supp_jason_reseq	-0.429	-0.39
low_pH_jason_reseq	0.318	0.378
NO_jason_reseq	0.173	0.068
B6_jason_reseq	-1.638	-1.491
MHCII_jason_reseq	-0.594	-1.426
Isoniazid02	-0.509	0.122
Rifampicin4	0.712	-0.877
Ethambutol3	-0.496	0.496
Meropenem3	-0.419	0.821
Vancomycin16	-0.058	-0.342
Rv2680_day32	-0.921	-1.752
H37Rv_KO_MarP	0.667	-0.162
hypoxia_3wks	0.0	0.159
hypoxia_6wks	0.384	0.117
glycerol	0.541	0.064
cholesterol	0.141	-2.313
AJ	1.365	-2.397
Bibs02	-0.729	-2.191
Bibs02c	-0.409	-2.402
BL6	-0.033	-0.307
BL6a	0.369	-1.235
BXD01	0.065	0.042
BXD010	-0.033	-0.25
BXD011	0.264	-0.141
BXD03	1.111	0.268
BXD04	0.0	0.303
BXD05	1.058	-0.46
BXD06	0.249	-0.534
BXD07	0.258	0.266
BXD08	-0.26	0.228
BXD09	0.534	-0.512
CAST	-0.38	-1.842
CCcont	0.18	0.929
DS01	-0.123	-2.89
DS02	-0.866	-2.777
DS04	-1.086	-1.587
DS0c	-0.947	-3.306
GP01	-0.358	-0.327
GP02	-0.934	-1.063
GP0c	0.908	-0.332
NOD	0.854	-0.718
NZO	0.413	-2.494
PWK	-0.102	-1.195
H37Rv_KO_CtpC	0.956	-0.108
H37Rv_KO_CtpD	1.399	-1.845
H37Rv_KO_Rv1272	1.299	0.309
H37Rv_KO_SugABC	1.981	1.105
H37Rv_KO_MbtN	0.235	0.525
Trans05	-0.571	-0.652
macrophage_unactivated	1.376	0.552
IL1	0.552	0.872
Rapamycin	0.169	0.844
Tcell	0.091	-0.782
GMCSF	0.491	0.09
IFNab	0.635	1.14
IFNg	0.561	0.412
IFNg_GMCSF1	-0.273	-0.038
Rv1432_day32	-0.697	-2.369
Rv1565c_day32	0.431	-1.392
secA2_input	1.13	0.393
delta_Rv3594	0.603	0.454
delta_Rv3717	0.287	0.215
delta_Rv3811	-0.126	0.162
delta_Rv0954	0.809	0.702
PonA1	0.526	0.599
EccD1_KO	0.599	-0.457
EspI_KO	0.077	-0.451
PE35_KO	0.312	-0.198
PPE68_KO	0.086	-0.246
glycerol2	0.115	0.601
lignocerate	0.569	0.705
oleate	0.06	0.272
phosphatidylcholine	0.521	0.541
acetate	0.924	0.436
glucAc	0.689	0.284
Rv0950ko	-0.706	0.0
Rv1096ko	-0.881	0.202
Rv3684ko	-0.413	-0.075
delta_otsA_trehalose	0.621	-0.675