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 Rv0147/-:

update plot	correlation	link to info on gene
Rv1411c/lprG	(cc=0.4297)	info on Rv1411c/lprG
Rv1780/-	(cc=0.4268)	info on Rv1780/-
Rv3784/-	(cc=0.4248)	info on Rv3784/-
Rv1892/-	(cc=0.416)	info on Rv1892/-
Rv2351c/plcA	(cc=0.4046)	info on Rv2351c/plcA
Rv1885c/-	(cc=0.4036)	info on Rv1885c/-
Rv0207c/-	(cc=0.3923)	info on Rv0207c/-
Rv3486/-	(cc=0.3898)	info on Rv3486/-
Rv0473/-	(cc=0.3815)	info on Rv0473/-
Rv0476/-	(cc=0.3814)	info on Rv0476/-

Correlation of Rv0147/- with Rv3486/-

Normalized LFCs for Rv0147/-:
(description and provenance of datasets)

	Rv0147/-	Rv3486/-
Fe_supp_jason_reseq	0.919	0.379
low_pH_jason_reseq	-1.782	-1.196
NO_jason_reseq	-1.129	-0.654
B6_jason_reseq	-0.01	-0.522
MHCII_jason_reseq	1.187	0.388
Isoniazid02	0.639	-0.111
Rifampicin4	-0.777	-0.428
Ethambutol3	0.246	0.708
Meropenem3	0.262	0.163
Vancomycin16	-0.584	0.045
Rv2680_day32	0.786	1.086
H37Rv_KO_MarP	0.13	0.47
hypoxia_3wks	1.069	0.02
hypoxia_6wks	0.9	0.317
glycerol	1.162	-0.171
cholesterol	0.14	-0.64
AJ	0.355	-0.143
Bibs02	-0.318	-0.658
Bibs02c	0.194	0.265
BL6	-0.157	-0.247
BL6a	0.066	0.255
BXD01	0.268	-0.221
BXD010	0.521	0.016
BXD011	-0.06	-0.026
BXD03	0.352	-0.063
BXD04	0.385	-0.179
BXD05	0.15	0.516
BXD06	0.0	-0.019
BXD07	0.133	0.258
BXD08	0.287	0.333
BXD09	-0.073	-0.152
CAST	-0.459	-0.314
CCcont	-0.013	0.042
DS01	-1.193	-0.727
DS02	0.235	0.176
DS04	-1.649	0.129
DS0c	-0.965	-0.506
GP01	0.615	-0.453
GP02	0.963	-1.348
GP0c	0.729	0.132
NOD	-0.029	0.024
NZO	0.465	-0.643
PWK	0.959	-0.028
H37Rv_KO_CtpC	-0.135	-0.275
H37Rv_KO_CtpD	0.132	1.131
H37Rv_KO_Rv1272	0.255	0.57
H37Rv_KO_SugABC	-0.069	0.427
H37Rv_KO_MbtN	1.51	0.653
Trans05	0.593	0.504
macrophage_unactivated	0.11	0.107
IL1	-1.02	-0.181
Rapamycin	0.288	0.236
Tcell	-0.795	-0.199
GMCSF	0.119	0.174
IFNab	1.366	0.076
IFNg	-0.494	0.168
IFNg_GMCSF1	-0.597	0.255
Rv1432_day32	0.619	0.501
Rv1565c_day32	0.693	0.22
secA2_input	0.094	0.202
delta_Rv3594	-0.038	0.257
delta_Rv3717	0.233	-0.161
delta_Rv3811	0.175	-0.635
delta_Rv0954	-0.173	-0.074
PonA1	-0.5	-0.376
EccD1_KO	-0.562	-0.072
EspI_KO	-0.756	0.619
PE35_KO	-0.951	-0.265
PPE68_KO	-0.934	-0.061
glycerol2	1.251	0.622
lignocerate	0.857	0.725
oleate	0.571	0.364
phosphatidylcholine	0.472	0.599
acetate	0.346	0.196
glucAc	0.194	0.221
Rv0950ko	0.075	-0.13
Rv1096ko	-0.377	-1.324
Rv3684ko	-0.357	-0.832
delta_otsA_trehalose	-0.577	0.23