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 Rv1949c/-:

update plot	correlation	link to info on gene
Rv0403c/mmpS1	(cc=0.6195)	info on Rv0403c/mmpS1
Rv1521/fadD25	(cc=0.5944)	info on Rv1521/fadD25
Rv1984c/cfp21	(cc=0.5857)	info on Rv1984c/cfp21
Rv2435c/-	(cc=0.577)	info on Rv2435c/-
Rv1871c/-	(cc=0.5509)	info on Rv1871c/-
Rv1215c/-	(cc=0.5463)	info on Rv1215c/-
Rv1861/-	(cc=0.5442)	info on Rv1861/-
Rv1504c/-	(cc=0.5404)	info on Rv1504c/-
Rv2545/vapB18	(cc=0.5051)	info on Rv2545/vapB18
Rv2957/-	(cc=0.5029)	info on Rv2957/-

Correlation of Rv1949c/- with Rv1861/-

Normalized LFCs for Rv1949c/-:
(description and provenance of datasets)

	Rv1949c/-	Rv1861/-
Fe_supp_jason_reseq	0.311	-0.117
low_pH_jason_reseq	-0.689	-1.655
NO_jason_reseq	0.239	0.428
B6_jason_reseq	-0.692	-1.122
MHCII_jason_reseq	-0.969	-0.956
Isoniazid02	-0.113	-0.723
Rifampicin4	-0.011	-0.284
Ethambutol3	0.047	0.428
Meropenem3	0.629	1.029
Vancomycin16	-0.377	-0.342
Rv2680_day32	0.057	0.683
H37Rv_KO_MarP	0.48	-0.428
hypoxia_3wks	0.303	0.63
hypoxia_6wks	-0.547	1.165
glycerol	-0.888	-2.422
cholesterol	0.519	-0.936
AJ	-0.044	0.155
Bibs02	0.258	0.057
Bibs02c	-0.341	-1.555
BL6	-0.195	-0.072
BL6a	-0.142	-0.35
BXD01	0.438	0.581
BXD010	-0.041	0.628
BXD011	0.194	0.659
BXD03	0.242	0.255
BXD04	0.926	0.521
BXD05	0.283	-0.009
BXD06	0.033	0.903
BXD07	0.226	0.9
BXD08	0.742	0.989
BXD09	0.274	0.753
CAST	0.085	0.31
CCcont	-0.573	-0.188
DS01	0.074	0.445
DS02	0.041	-0.199
DS04	-0.675	0.604
DS0c	-0.402	0.696
GP01	0.819	0.859
GP02	0.762	1.048
GP0c	-0.221	0.809
NOD	-0.072	0.861
NZO	0.038	0.334
PWK	-0.013	0.527
H37Rv_KO_CtpC	0.887	1.449
H37Rv_KO_CtpD	0.158	1.112
H37Rv_KO_Rv1272	0.568	0.338
H37Rv_KO_SugABC	0.301	1.671
H37Rv_KO_MbtN	0.92	0.74
Trans05	1.347	0.734
macrophage_unactivated	0.139	0.12
IL1	-0.792	-0.617
Rapamycin	-0.344	0.0
Tcell	-0.15	-0.192
GMCSF	0.364	-0.396
IFNab	-0.369	-0.453
IFNg	0.024	-0.363
IFNg_GMCSF1	-0.264	-0.167
Rv1432_day32	0.068	0.386
Rv1565c_day32	0.019	0.297
secA2_input	-0.753	-0.194
delta_Rv3594	0.044	-0.11
delta_Rv3717	-0.059	-0.41
delta_Rv3811	-0.123	-0.556
delta_Rv0954	-0.69	0.417
PonA1	-0.125	-0.129
EccD1_KO	0.158	-0.046
EspI_KO	-0.08	0.22
PE35_KO	0.099	-0.064
PPE68_KO	0.067	0.352
glycerol2	0.115	-0.149
lignocerate	-0.438	-0.505
oleate	0.644	0.411
phosphatidylcholine	0.409	-0.101
acetate	-1.159	-0.427
glucAc	-1.522	-1.002
Rv0950ko	0.075	1.061
Rv1096ko	-0.995	-0.196
Rv3684ko	-0.305	-1.055
delta_otsA_trehalose	-0.338	0.247