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 Rv0959/-

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

	Rv0583c/lpqN	Rv0959/-
Fe_supp_jason_reseq	0.112	0.791
low_pH_jason_reseq	-1.896	0.132
NO_jason_reseq	0.063	-0.454
B6_jason_reseq	0.578	0.968
MHCII_jason_reseq	0.08	1.232
Isoniazid02	-0.311	0.439
Rifampicin4	0.022	0.309
Ethambutol3	2.689	2.998
Meropenem3	-0.029	0.491
Vancomycin16	0.164	0.255
Rv2680_day32	1.456	1.803
H37Rv_KO_MarP	0.213	-0.037
hypoxia_3wks	0.159	-0.072
hypoxia_6wks	-0.173	0.038
glycerol	-0.211	0.786
cholesterol	0.186	0.706
AJ	-0.387	-0.536
Bibs02	0.575	0.51
Bibs02c	0.176	-0.459
BL6	-0.397	-0.123
BL6a	0.393	-0.601
BXD01	0.526	-0.379
BXD010	-0.522	-1.209
BXD011	0.339	-1.144
BXD03	-0.04	-1.156
BXD04	-0.211	-0.932
BXD05	-0.032	-0.052
BXD06	0.0	-0.663
BXD07	0.02	-0.511
BXD08	0.452	-0.201
BXD09	-0.234	-0.808
CAST	-0.082	-0.4
CCcont	-0.328	-0.571
DS01	0.303	0.065
DS02	0.123	0.759
DS04	0.385	-0.018
DS0c	-0.212	0.41
GP01	-0.178	-0.476
GP02	0.234	0.805
GP0c	-0.253	-0.212
NOD	0.039	0.241
NZO	-0.34	-0.038
PWK	-0.064	-0.453
H37Rv_KO_CtpC	-0.926	-1.32
H37Rv_KO_CtpD	-0.624	-0.954
H37Rv_KO_Rv1272	-1.591	-0.659
H37Rv_KO_SugABC	-0.96	-0.434
H37Rv_KO_MbtN	-0.78	-2.086
Trans05	-0.847	-0.482
macrophage_unactivated	-0.395	1.872
IL1	-1.068	0.068
Rapamycin	-0.417	0.138
Tcell	0.238	1.408
GMCSF	-0.536	0.119
IFNab	-0.937	-0.36
IFNg	-0.013	-1.384
IFNg_GMCSF1	-0.258	-0.299
Rv1432_day32	0.0	0.754
Rv1565c_day32	0.659	-0.37
secA2_input	0.055	-1.05
delta_Rv3594	0.662	-0.592
delta_Rv3717	0.451	-0.71
delta_Rv3811	-0.381	-0.983
delta_Rv0954	0.156	-0.234
PonA1	0.321	0.072
EccD1_KO	0.477	0.0
EspI_KO	1.774	1.204
PE35_KO	1.263	0.971
PPE68_KO	0.755	1.283
glycerol2	0.28	0.053
lignocerate	-0.23	0.069
oleate	0.75	0.328
phosphatidylcholine	0.437	0.52
acetate	-0.464	0.095
glucAc	-0.556	0.701
Rv0950ko	0.603	0.703
Rv1096ko	1.098	0.956
Rv3684ko	-0.311	0.969
delta_otsA_trehalose	0.598	1.045