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 Rv2768c/PPE43

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

	Rv1632c/-	Rv2768c/PPE43
Fe_supp_jason_reseq	-1.19	-1.089
low_pH_jason_reseq	0.231	0.49
NO_jason_reseq	0.239	-0.018
B6_jason_reseq	0.772	0.289
MHCII_jason_reseq	0.957	0.712
Isoniazid02	1.787	0.288
Rifampicin4	0.043	0.214
Ethambutol3	1.718	0.848
Meropenem3	0.201	-0.207
Vancomycin16	0.21	0.191
Rv2680_day32	0.098	1.162
H37Rv_KO_MarP	0.202	0.083
hypoxia_3wks	0.227	-0.144
hypoxia_6wks	0.38	-0.136
glycerol	-0.085	-0.658
cholesterol	-0.711	-0.184
AJ	0.571	0.316
Bibs02	0.244	0.279
Bibs02c	0.258	0.579
BL6	0.169	-0.676
BL6a	-0.189	-0.044
BXD01	-0.713	-0.192
BXD010	-1.353	-0.871
BXD011	-0.411	-0.389
BXD03	-2.036	-0.278
BXD04	-1.527	-0.042
BXD05	-1.091	-0.53
BXD06	-0.89	-0.349
BXD07	-0.601	-0.389
BXD08	-0.921	-0.355
BXD09	-0.986	-0.698
CAST	0.032	0.199
CCcont	-1.21	-0.427
DS01	0.168	0.773
DS02	-0.187	0.158
DS04	0.402	0.908
DS0c	0.514	0.577
GP01	0.403	-0.022
GP02	-1.133	-0.789
GP0c	-0.764	-1.012
NOD	0.091	-0.342
NZO	0.613	0.233
PWK	0.193	0.229
H37Rv_KO_CtpC	-1.184	-0.64
H37Rv_KO_CtpD	0.282	0.009
H37Rv_KO_Rv1272	0.52	-0.167
H37Rv_KO_SugABC	0.138	0.189
H37Rv_KO_MbtN	-1.736	0.212
Trans05	-0.696	-0.473
macrophage_unactivated	-0.565	0.306
IL1	-0.842	-0.101
Rapamycin	-0.908	-0.574
Tcell	-0.531	0.316
GMCSF	0.013	0.045
IFNab	-0.989	-0.051
IFNg	-0.107	-0.788
IFNg_GMCSF1	-0.339	-0.214
Rv1432_day32	0.656	0.656
Rv1565c_day32	-0.629	0.954
secA2_input	-0.935	0.318
delta_Rv3594	0.555	0.74
delta_Rv3717	0.218	0.259
delta_Rv3811	0.225	0.015
delta_Rv0954	-0.136	0.355
PonA1	0.976	0.575
EccD1_KO	0.319	0.263
EspI_KO	0.348	-0.094
PE35_KO	-0.388	0.166
PPE68_KO	-0.426	-0.413
glycerol2	0.092	0.64
lignocerate	0.401	1.174
oleate	0.859	0.444
phosphatidylcholine	0.539	0.905
acetate	0.08	0.359
glucAc	-0.126	0.602
Rv0950ko	-0.805	0.109
Rv1096ko	-0.739	-0.112
Rv3684ko	-0.757	-0.534
delta_otsA_trehalose	-1.151	-0.447