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 Rv0583c/lpqN:

update plot	correlation	link to info on gene
Rv2484c/-	(cc=0.5411)	info on Rv2484c/-
Rv3060c/-	(cc=0.5353)	info on Rv3060c/-
Rv0959/-	(cc=0.5193)	info on Rv0959/-
Rv1070c/echA8	(cc=0.5113)	info on Rv1070c/echA8
Rv0569/-	(cc=0.5084)	info on Rv0569/-
Rv1674c/-	(cc=0.4975)	info on Rv1674c/-
Rv1071c/echA9	(cc=0.4962)	info on Rv1071c/echA9
Rv0840c/pip	(cc=0.4873)	info on Rv0840c/pip
Rv0139/-	(cc=0.4798)	info on Rv0139/-
Rv0613c/-	(cc=0.4796)	info on Rv0613c/-

Correlation of Rv0583c/lpqN with Rv1674c/-

Normalized LFCs for Rv0583c/lpqN:
(description and provenance of datasets)

	Rv0583c/lpqN	Rv1674c/-
Fe_supp_jason_reseq	0.112	0.107
low_pH_jason_reseq	-1.896	-1.745
NO_jason_reseq	0.063	-0.268
B6_jason_reseq	0.578	0.765
MHCII_jason_reseq	0.08	0.621
Isoniazid02	-0.311	-0.127
Rifampicin4	0.022	-0.032
Ethambutol3	2.689	3.103
Meropenem3	-0.029	-0.426
Vancomycin16	0.164	-0.199
Rv2680_day32	1.456	-0.066
H37Rv_KO_MarP	0.213	1.245
hypoxia_3wks	0.159	-0.554
hypoxia_6wks	-0.173	-0.727
glycerol	-0.211	0.076
cholesterol	0.186	-0.045
AJ	-0.387	0.798
Bibs02	0.575	0.37
Bibs02c	0.176	0.271
BL6	-0.397	0.253
BL6a	0.393	-0.535
BXD01	0.526	-0.64
BXD010	-0.522	-0.744
BXD011	0.339	-0.45
BXD03	-0.04	-2.001
BXD04	-0.211	-0.286
BXD05	-0.032	-0.461
BXD06	0.0	-0.849
BXD07	0.02	-1.419
BXD08	0.452	-0.151
BXD09	-0.234	-0.673
CAST	-0.082	-0.184
CCcont	-0.328	-0.289
DS01	0.303	-0.616
DS02	0.123	0.466
DS04	0.385	0.802
DS0c	-0.212	0.251
GP01	-0.178	-0.879
GP02	0.234	1.05
GP0c	-0.253	-0.17
NOD	0.039	-0.996
NZO	-0.34	0.104
PWK	-0.064	-0.325
H37Rv_KO_CtpC	-0.926	-1.699
H37Rv_KO_CtpD	-0.624	1.108
H37Rv_KO_Rv1272	-1.591	0.454
H37Rv_KO_SugABC	-0.96	-1.435
H37Rv_KO_MbtN	-0.78	-1.015
Trans05	-0.847	0.106
macrophage_unactivated	-0.395	-1.36
IL1	-1.068	-1.026
Rapamycin	-0.417	-0.362
Tcell	0.238	0.156
GMCSF	-0.536	1.885
IFNab	-0.937	-1.24
IFNg	-0.013	-0.711
IFNg_GMCSF1	-0.258	-1.496
Rv1432_day32	0.0	0.405
Rv1565c_day32	0.659	0.911
secA2_input	0.055	0.069
delta_Rv3594	0.662	0.113
delta_Rv3717	0.451	-0.058
delta_Rv3811	-0.381	0.214
delta_Rv0954	0.156	0.306
PonA1	0.321	-0.881
EccD1_KO	0.477	2.253
EspI_KO	1.774	0.582
PE35_KO	1.263	2.727
PPE68_KO	0.755	2.675
glycerol2	0.28	0.303
lignocerate	-0.23	0.918
oleate	0.75	0.306
phosphatidylcholine	0.437	0.919
acetate	-0.464	0.69
glucAc	-0.556	0.716
Rv0950ko	0.603	0.537
Rv1096ko	1.098	1.695
Rv3684ko	-0.311	0.917
delta_otsA_trehalose	0.598	-1.084