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 Rv1526c/-

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

	Rv1530/adh	Rv1526c/-
Fe_supp_jason_reseq	-0.429	0.082
low_pH_jason_reseq	0.318	0.043
NO_jason_reseq	0.173	0.331
B6_jason_reseq	-1.638	-2.248
MHCII_jason_reseq	-0.594	-1.614
Isoniazid02	-0.509	0.047
Rifampicin4	0.712	-0.325
Ethambutol3	-0.496	-0.212
Meropenem3	-0.419	-0.165
Vancomycin16	-0.058	-0.133
Rv2680_day32	-0.921	-0.548
H37Rv_KO_MarP	0.667	1.37
hypoxia_3wks	0.0	-0.558
hypoxia_6wks	0.384	0.0
glycerol	0.541	0.243
cholesterol	0.141	-0.038
AJ	1.365	0.225
Bibs02	-0.729	-0.415
Bibs02c	-0.409	0.344
BL6	-0.033	2.032
BL6a	0.369	1.277
BXD01	0.065	1.115
BXD010	-0.033	1.082
BXD011	0.264	2.02
BXD03	1.111	1.063
BXD04	0.0	0.426
BXD05	1.058	1.058
BXD06	0.249	0.967
BXD07	0.258	1.868
BXD08	-0.26	0.575
BXD09	0.534	1.249
CAST	-0.38	0.707
CCcont	0.18	1.423
DS01	-0.123	0.633
DS02	-0.866	0.748
DS04	-1.086	0.402
DS0c	-0.947	-0.295
GP01	-0.358	0.727
GP02	-0.934	1.017
GP0c	0.908	1.754
NOD	0.854	1.154
NZO	0.413	0.1
PWK	-0.102	-0.156
H37Rv_KO_CtpC	0.956	1.462
H37Rv_KO_CtpD	1.399	1.973
H37Rv_KO_Rv1272	1.299	2.07
H37Rv_KO_SugABC	1.981	1.981
H37Rv_KO_MbtN	0.235	0.479
Trans05	-0.571	1.657
macrophage_unactivated	1.376	0.71
IL1	0.552	0.095
Rapamycin	0.169	0.648
Tcell	0.091	0.909
GMCSF	0.491	0.594
IFNab	0.635	0.239
IFNg	0.561	1.056
IFNg_GMCSF1	-0.273	0.05
Rv1432_day32	-0.697	-0.87
Rv1565c_day32	0.431	-0.291
secA2_input	1.13	-0.482
delta_Rv3594	0.603	0.895
delta_Rv3717	0.287	0.029
delta_Rv3811	-0.126	1.17
delta_Rv0954	0.809	0.652
PonA1	0.526	1.392
EccD1_KO	0.599	0.835
EspI_KO	0.077	0.967
PE35_KO	0.312	0.989
PPE68_KO	0.086	0.95
glycerol2	0.115	0.376
lignocerate	0.569	1.333
oleate	0.06	-1.157
phosphatidylcholine	0.521	0.758
acetate	0.924	1.403
glucAc	0.689	1.533
Rv0950ko	-0.706	-0.265
Rv1096ko	-0.881	-0.407
Rv3684ko	-0.413	-0.704
delta_otsA_trehalose	0.621	1.158