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 Rv1632c/-:

update plot	correlation	link to info on gene
Rv0325/-	(cc=0.6573)	info on Rv0325/-
Rv0614/-	(cc=0.5968)	info on Rv0614/-
Rv2016/-	(cc=0.5919)	info on Rv2016/-
Rv2768c/PPE43	(cc=0.5754)	info on Rv2768c/PPE43
Rv2917/-	(cc=0.5716)	info on Rv2917/-
Rv3480c/-	(cc=0.5598)	info on Rv3480c/-
Rv2089c/pepE	(cc=0.5542)	info on Rv2089c/pepE
Rv0850/-	(cc=0.5414)	info on Rv0850/-
Rv0764c/cyp51	(cc=0.5362)	info on Rv0764c/cyp51
Rv3641c/fic	(cc=0.5267)	info on Rv3641c/fic

Correlation of Rv1632c/- with Rv2016/-

Normalized LFCs for Rv1632c/-:
(description and provenance of datasets)

	Rv1632c/-	Rv2016/-
Fe_supp_jason_reseq	-1.19	0.543
low_pH_jason_reseq	0.231	-0.842
NO_jason_reseq	0.239	-1.016
B6_jason_reseq	0.772	0.723
MHCII_jason_reseq	0.957	0.821
Isoniazid02	1.787	1.934
Rifampicin4	0.043	1.782
Ethambutol3	1.718	2.343
Meropenem3	0.201	0.386
Vancomycin16	0.21	-0.26
Rv2680_day32	0.098	0.832
H37Rv_KO_MarP	0.202	0.065
hypoxia_3wks	0.227	-0.136
hypoxia_6wks	0.38	0.357
glycerol	-0.085	-0.685
cholesterol	-0.711	0.606
AJ	0.571	0.798
Bibs02	0.244	0.087
Bibs02c	0.258	0.129
BL6	0.169	-2.032
BL6a	-0.189	-0.944
BXD01	-0.713	-1.68
BXD010	-1.353	-0.946
BXD011	-0.411	-0.786
BXD03	-2.036	-0.908
BXD04	-1.527	-0.89
BXD05	-1.091	-0.3
BXD06	-0.89	-0.339
BXD07	-0.601	-1.786
BXD08	-0.921	-1.051
BXD09	-0.986	-1.366
CAST	0.032	-0.25
CCcont	-1.21	-1.693
DS01	0.168	0.52
DS02	-0.187	0.589
DS04	0.402	1.419
DS0c	0.514	1.365
GP01	0.403	0.984
GP02	-1.133	-1.116
GP0c	-0.764	0.754
NOD	0.091	0.348
NZO	0.613	-1.435
PWK	0.193	0.112
H37Rv_KO_CtpC	-1.184	-0.665
H37Rv_KO_CtpD	0.282	0.543
H37Rv_KO_Rv1272	0.52	-1.286
H37Rv_KO_SugABC	0.138	0.484
H37Rv_KO_MbtN	-1.736	-2.076
Trans05	-0.696	-0.238
macrophage_unactivated	-0.565	-0.388
IL1	-0.842	-1.35
Rapamycin	-0.908	-1.979
Tcell	-0.531	-0.935
GMCSF	0.013	0.211
IFNab	-0.989	-1.327
IFNg	-0.107	-0.577
IFNg_GMCSF1	-0.339	-0.723
Rv1432_day32	0.656	-0.111
Rv1565c_day32	-0.629	0.411
secA2_input	-0.935	-0.88
delta_Rv3594	0.555	-0.242
delta_Rv3717	0.218	0.087
delta_Rv3811	0.225	0.678
delta_Rv0954	-0.136	0.548
PonA1	0.976	0.943
EccD1_KO	0.319	0.332
EspI_KO	0.348	0.596
PE35_KO	-0.388	-1.435
PPE68_KO	-0.426	-1.193
glycerol2	0.092	0.168
lignocerate	0.401	-0.257
oleate	0.859	0.05
phosphatidylcholine	0.539	-0.238
acetate	0.08	0.903
glucAc	-0.126	-0.283
Rv0950ko	-0.805	0.0
Rv1096ko	-0.739	0.106
Rv3684ko	-0.757	0.383
delta_otsA_trehalose	-1.151	-1.511