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 Rv3575c/-:

update plot	correlation	link to info on gene
Rv2851c/-	(cc=0.5889)	info on Rv2851c/-
Rv2852c/mqo	(cc=0.4928)	info on Rv2852c/mqo
Rv0826/-	(cc=0.4461)	info on Rv0826/-
Rv3135/PPE50	(cc=0.4348)	info on Rv3135/PPE50
Rv3570c/hsaA	(cc=0.432)	info on Rv3570c/hsaA
Rv3272/-	(cc=0.4199)	info on Rv3272/-
Rv0624/vapC30	(cc=0.4181)	info on Rv0624/vapC30
Rv3549c/-	(cc=0.4108)	info on Rv3549c/-
Rv3687c/rsfB	(cc=0.4065)	info on Rv3687c/rsfB
Rv0491/regX3	(cc=0.4045)	info on Rv0491/regX3

Correlation of Rv3575c/- with Rv0826/-

Normalized LFCs for Rv3575c/-:
(description and provenance of datasets)

	Rv3575c/-	Rv0826/-
Fe_supp_jason_reseq	0.079	-0.48
low_pH_jason_reseq	-1.128	-1.4
NO_jason_reseq	0.331	0.845
B6_jason_reseq	0.737	0.127
MHCII_jason_reseq	-0.495	0.272
Isoniazid02	-0.256	0.013
Rifampicin4	-1.053	-0.168
Ethambutol3	0.223	-0.011
Meropenem3	0.199	0.061
Vancomycin16	-1.207	-0.154
Rv2680_day32	1.286	1.381
H37Rv_KO_MarP	0.638	0.161
hypoxia_3wks	1.695	0.0
hypoxia_6wks	0.902	0.038
glycerol	-0.657	-0.696
cholesterol	-2.09	-0.232
AJ	-0.363	0.35
Bibs02	-0.554	0.339
Bibs02c	-0.209	-0.118
BL6	-0.204	0.35
BL6a	-1.155	-0.267
BXD01	0.688	0.556
BXD010	-0.331	0.217
BXD011	0.305	-0.054
BXD03	-0.247	-0.116
BXD04	0.806	0.293
BXD05	0.008	0.171
BXD06	-0.326	0.29
BXD07	0.068	-0.027
BXD08	1.018	0.383
BXD09	0.484	-0.039
CAST	-2.167	0.075
CCcont	-1.041	-0.029
DS01	-0.447	0.222
DS02	1.345	0.348
DS04	-0.278	0.631
DS0c	-0.5	-0.104
GP01	-0.123	0.061
GP02	-0.227	0.156
GP0c	-0.059	-0.147
NOD	-1.516	-0.037
NZO	1.706	0.538
PWK	-1.388	0.585
H37Rv_KO_CtpC	-0.528	0.112
H37Rv_KO_CtpD	-0.679	-0.155
H37Rv_KO_Rv1272	-0.406	0.09
H37Rv_KO_SugABC	0.1	0.121
H37Rv_KO_MbtN	-0.434	0.803
Trans05	0.979	0.704
macrophage_unactivated	-0.593	0.388
IL1	1.652	-0.071
Rapamycin	0.758	-0.316
Tcell	0.964	0.3
GMCSF	0.269	0.335
IFNab	-0.568	-0.532
IFNg	3.017	0.126
IFNg_GMCSF1	2.533	0.902
Rv1432_day32	2.677	1.446
Rv1565c_day32	-1.579	0.074
secA2_input	0.171	0.404
delta_Rv3594	0.526	0.119
delta_Rv3717	1.122	0.554
delta_Rv3811	0.772	0.306
delta_Rv0954	0.328	0.328
PonA1	-1.287	-0.304
EccD1_KO	-0.036	-0.257
EspI_KO	0.063	0.536
PE35_KO	0.064	-0.615
PPE68_KO	0.07	-0.656
glycerol2	1.152	-0.015
lignocerate	0.04	0.179
oleate	0.047	0.213
phosphatidylcholine	0.657	0.262
acetate	-0.672	-0.025
glucAc	-0.536	-0.139
Rv0950ko	0.691	0.51
Rv1096ko	1.445	0.73
Rv3684ko	1.67	1.035
delta_otsA_trehalose	1.192	-0.544