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 Rv0370c/-:

update plot	correlation	link to info on gene
Rv0827c/kmtR	(cc=0.5373)	info on Rv0827c/kmtR
Rv3291c/lrpA	(cc=0.5162)	info on Rv3291c/lrpA
Rv1891/-	(cc=0.4653)	info on Rv1891/-
Rv0845/-	(cc=0.4497)	info on Rv0845/-
Rv1397c/vapC10	(cc=0.4465)	info on Rv1397c/vapC10
Rv1662/pks8	(cc=0.4362)	info on Rv1662/pks8
Rv1507c/-	(cc=0.4336)	info on Rv1507c/-
Rv2793c/truB	(cc=0.4206)	info on Rv2793c/truB
Rv3904c/esxE	(cc=0.4159)	info on Rv3904c/esxE
Rv3023c/-	(cc=0.4149)	info on Rv3023c/-

Correlation of Rv0370c/- with Rv3904c/esxE

Normalized LFCs for Rv0370c/-:
(description and provenance of datasets)

	Rv0370c/-	Rv3904c/esxE
Fe_supp_jason_reseq	-0.553	-0.758
low_pH_jason_reseq	1.696	1.2
NO_jason_reseq	0.42	-0.218
B6_jason_reseq	-0.388	-1.498
MHCII_jason_reseq	-1.006	-2.38
Isoniazid02	-0.741	0.581
Rifampicin4	0.72	-0.969
Ethambutol3	-0.912	0.923
Meropenem3	-0.072	0.589
Vancomycin16	0.101	0.621
Rv2680_day32	-0.893	0.663
H37Rv_KO_MarP	-0.416	0.282
hypoxia_3wks	0.0	-1.707
hypoxia_6wks	0.372	-1.518
glycerol	0.471	-1.878
cholesterol	-0.098	-0.598
AJ	1.4	0.94
Bibs02	0.608	0.415
Bibs02c	-0.54	-3.519
BL6	0.117	1.499
BL6a	1.195	0.247
BXD01	0.042	1.02
BXD010	1.067	1.327
BXD011	1.169	1.124
BXD03	0.243	1.066
BXD04	0.382	0.649
BXD05	-0.188	0.256
BXD06	0.73	1.025
BXD07	1.112	1.127
BXD08	0.442	0.963
BXD09	0.434	0.59
CAST	-0.237	0.48
CCcont	0.633	2.066
DS01	0.075	-0.65
DS02	-0.224	0.047
DS04	-0.2	1.539
DS0c	-0.146	-1.281
GP01	-0.594	1.039
GP02	0.052	0.621
GP0c	-0.86	0.977
NOD	-0.775	-1.04
NZO	1.631	2.724
PWK	0.789	-0.021
H37Rv_KO_CtpC	1.305	2.394
H37Rv_KO_CtpD	1.835	1.81
H37Rv_KO_Rv1272	1.819	1.614
H37Rv_KO_SugABC	1.368	2.885
H37Rv_KO_MbtN	1.359	1.519
Trans05	1.569	2.42
macrophage_unactivated	0.518	-0.937
IL1	0.985	-0.51
Rapamycin	0.15	-0.829
Tcell	-0.336	-2.102
GMCSF	0.375	-0.713
IFNab	-0.076	-1.569
IFNg	0.78	-0.775
IFNg_GMCSF1	-0.408	-1.581
Rv1432_day32	0.524	0.485
Rv1565c_day32	0.82	0.25
secA2_input	-0.204	1.943
delta_Rv3594	0.058	0.15
delta_Rv3717	0.273	-0.711
delta_Rv3811	-0.757	-0.648
delta_Rv0954	0.704	0.411
PonA1	1.062	0.32
EccD1_KO	0.0	-0.842
EspI_KO	0.736	0.704
PE35_KO	0.543	0.7
PPE68_KO	0.512	0.192
glycerol2	-0.618	-0.43
lignocerate	-0.415	-0.537
oleate	-1.117	-0.834
phosphatidylcholine	-0.618	-0.556
acetate	0.658	-0.045
glucAc	0.184	-0.352
Rv0950ko	0.684	1.36
Rv1096ko	1.342	0.772
Rv3684ko	0.829	0.167
delta_otsA_trehalose	-0.672	4.617