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 Rv2271/-:

update plot	correlation	link to info on gene
Rv0235c/-	(cc=0.4109)	info on Rv0235c/-
Rv3446c/-	(cc=0.3877)	info on Rv3446c/-
Rv1581c/-	(cc=0.3805)	info on Rv1581c/-
Rv1049/-	(cc=0.3716)	info on Rv1049/-
Rv0541c/-	(cc=0.3631)	info on Rv0541c/-
Rv3181c/-	(cc=0.361)	info on Rv3181c/-
Rv2927c/-	(cc=0.3578)	info on Rv2927c/-
Rv1214c/PE14	(cc=0.3555)	info on Rv1214c/PE14
Rv0349/-	(cc=0.3553)	info on Rv0349/-
Rv1217c/-	(cc=0.3542)	info on Rv1217c/-

Correlation of Rv2271/- with Rv1049/-

Normalized LFCs for Rv2271/-:
(description and provenance of datasets)

	Rv2271/-	Rv1049/-
Fe_supp_jason_reseq	-1.872	1.435
low_pH_jason_reseq	1.482	1.566
NO_jason_reseq	0.507	2.116
B6_jason_reseq	-0.965	-0.889
MHCII_jason_reseq	-2.651	-1.04
Isoniazid02	0.306	-0.501
Rifampicin4	-0.712	0.661
Ethambutol3	-0.089	0.9
Meropenem3	-0.399	-0.254
Vancomycin16	0.621	0.329
Rv2680_day32	0.704	-0.386
H37Rv_KO_MarP	-0.312	0.078
hypoxia_3wks	-0.132	0.817
hypoxia_6wks	-0.898	0.221
glycerol	-0.929	-0.772
cholesterol	-1.024	-0.292
AJ	0.121	-0.998
Bibs02	-1.293	-1.552
Bibs02c	0.596	-1.234
BL6	-0.682	-0.563
BL6a	0.397	-1.191
BXD01	0.567	0.482
BXD010	0.022	-0.017
BXD011	-0.13	0.291
BXD03	1.009	-0.637
BXD04	-0.022	0.855
BXD05	0.28	-0.091
BXD06	-0.441	0.076
BXD07	0.036	0.507
BXD08	-0.024	1.06
BXD09	0.282	0.399
CAST	0.594	-0.03
CCcont	0.321	-0.265
DS01	-0.459	-0.015
DS02	-1.355	0.814
DS04	1.029	0.921
DS0c	-0.468	-0.352
GP01	0.928	-0.665
GP02	-0.696	0.163
GP0c	-0.185	-0.497
NOD	1.695	0.841
NZO	-1.243	0.09
PWK	0.0	-0.132
H37Rv_KO_CtpC	0.808	-0.575
H37Rv_KO_CtpD	0.491	0.52
H37Rv_KO_Rv1272	-1.18	0.721
H37Rv_KO_SugABC	0.673	1.351
H37Rv_KO_MbtN	-0.992	-0.128
Trans05	-1.378	-0.669
macrophage_unactivated	2.459	2.039
IL1	-0.801	-0.039
Rapamycin	-1.906	-0.663
Tcell	-0.078	0.316
GMCSF	0.805	-1.89
IFNab	-0.65	-0.744
IFNg	0.094	0.259
IFNg_GMCSF1	-0.424	0.487
Rv1432_day32	-0.794	0.08
Rv1565c_day32	0.63	-0.799
secA2_input	-0.322	-0.767
delta_Rv3594	1.663	0.613
delta_Rv3717	1.505	1.971
delta_Rv3811	2.738	1.899
delta_Rv0954	0.929	0.849
PonA1	0.165	0.731
EccD1_KO	-0.71	-0.569
EspI_KO	-1.109	-1.492
PE35_KO	-0.21	-0.893
PPE68_KO	-0.032	-0.352
glycerol2	0.142	0.46
lignocerate	0.307	0.481
oleate	0.18	1.099
phosphatidylcholine	0.104	0.901
acetate	-0.13	-0.203
glucAc	0.244	0.84
Rv0950ko	0.317	0.286
Rv1096ko	-0.431	1.312
Rv3684ko	-0.989	0.557
delta_otsA_trehalose	-0.578	1.043