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 Rv2750/-:

update plot	correlation	link to info on gene
Rv0551c/fadD8	(cc=0.5844)	info on Rv0551c/fadD8
Rv2642/-	(cc=0.4974)	info on Rv2642/-
Rv0724A/-	(cc=0.4849)	info on Rv0724A/-
Rv3839/-	(cc=0.4819)	info on Rv3839/-
Rv1894c/-	(cc=0.478)	info on Rv1894c/-
Rv1989c/-	(cc=0.4738)	info on Rv1989c/-
Rv3577/-	(cc=0.4674)	info on Rv3577/-
Rv2095c/pafC	(cc=0.4643)	info on Rv2095c/pafC
Rv3294c/-	(cc=0.4543)	info on Rv3294c/-
Rv1734c/-	(cc=0.4536)	info on Rv1734c/-

Correlation of Rv2750/- with Rv3577/-

Normalized LFCs for Rv2750/-:
(description and provenance of datasets)

	Rv2750/-	Rv3577/-
Fe_supp_jason_reseq	-1.361	0.625
low_pH_jason_reseq	-1.087	-0.043
NO_jason_reseq	0.446	0.378
B6_jason_reseq	0.623	-0.378
MHCII_jason_reseq	0.342	0.163
Isoniazid02	-0.055	-0.266
Rifampicin4	-1.795	-0.601
Ethambutol3	-0.415	-0.32
Meropenem3	0.023	-0.266
Vancomycin16	-0.841	-0.589
Rv2680_day32	-1.013	-0.793
H37Rv_KO_MarP	-0.433	0.595
hypoxia_3wks	-0.467	0.235
hypoxia_6wks	0.28	0.464
glycerol	-0.05	-0.939
cholesterol	0.133	-0.674
AJ	1.336	-0.156
Bibs02	0.168	0.0
Bibs02c	-0.476	0.932
BL6	-1.684	-0.323
BL6a	-0.098	-0.24
BXD01	0.392	-0.088
BXD010	-0.411	-0.064
BXD011	0.089	-1.306
BXD03	-1.287	-0.294
BXD04	-0.158	0.187
BXD05	-0.172	0.043
BXD06	-0.566	-1.257
BXD07	0.258	-0.357
BXD08	0.275	-1.1
BXD09	-0.451	-0.69
CAST	-0.202	-0.594
CCcont	-1.826	-0.481
DS01	-1.223	0.551
DS02	0.693	0.618
DS04	0.302	-0.271
DS0c	0.858	0.896
GP01	-0.401	-0.459
GP02	-0.633	0.649
GP0c	-0.99	0.448
NOD	1.232	0.373
NZO	0.371	-0.316
PWK	1.312	1.053
H37Rv_KO_CtpC	0.518	0.026
H37Rv_KO_CtpD	-1.705	-0.656
H37Rv_KO_Rv1272	0.732	-1.022
H37Rv_KO_SugABC	0.069	-1.574
H37Rv_KO_MbtN	-1.433	-1.012
Trans05	0.815	-0.158
macrophage_unactivated	-1.31	-0.126
IL1	-1.427	-0.555
Rapamycin	-1.175	-0.856
Tcell	0.078	-1.228
GMCSF	-2.516	-0.613
IFNab	-0.381	0.115
IFNg	-0.337	-1.008
IFNg_GMCSF1	0.292	-1.103
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.286	-0.586
secA2_input	0.834	2.537
delta_Rv3594	1.117	0.555
delta_Rv3717	0.893	1.159
delta_Rv3811	1.511	1.017
delta_Rv0954	-0.981	2.482
PonA1	0.278	0.372
EccD1_KO	-0.079	0.089
EspI_KO	-0.918	0.0
PE35_KO	0.07	0.726
PPE68_KO	-0.403	-0.086
glycerol2	-1.048	-1.401
lignocerate	-0.911	-0.838
oleate	0.176	-0.387
phosphatidylcholine	0.067	-1.021
acetate	-0.886	-0.663
glucAc	-1.309	-0.482
Rv0950ko	1.022	0.0
Rv1096ko	0.651	0.971
Rv3684ko	0.203	0.789
delta_otsA_trehalose	3.743	4.326