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 Rv2545/vapB18

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

	Rv1949c/-	Rv2545/vapB18
Fe_supp_jason_reseq	0.311	0.137
low_pH_jason_reseq	-0.689	-0.49
NO_jason_reseq	0.239	0.116
B6_jason_reseq	-0.692	-1.036
MHCII_jason_reseq	-0.969	-1.423
Isoniazid02	-0.113	0.374
Rifampicin4	-0.011	0.081
Ethambutol3	0.047	0.393
Meropenem3	0.629	0.204
Vancomycin16	-0.377	0.716
Rv2680_day32	0.057	0.343
H37Rv_KO_MarP	0.48	0.337
hypoxia_3wks	0.303	0.666
hypoxia_6wks	-0.547	-0.687
glycerol	-0.888	2.109
cholesterol	0.519	0.807
AJ	-0.044	-0.015
Bibs02	0.258	0.478
Bibs02c	-0.341	0.577
BL6	-0.195	0.84
BL6a	-0.142	0.898
BXD01	0.438	0.825
BXD010	-0.041	0.789
BXD011	0.194	0.293
BXD03	0.242	1.178
BXD04	0.926	0.856
BXD05	0.283	0.654
BXD06	0.033	0.258
BXD07	0.226	0.651
BXD08	0.742	1.018
BXD09	0.274	0.533
CAST	0.085	0.874
CCcont	-0.573	1.162
DS01	0.074	1.032
DS02	0.041	0.6
DS04	-0.675	-0.076
DS0c	-0.402	0.556
GP01	0.819	0.418
GP02	0.762	1.606
GP0c	-0.221	1.085
NOD	-0.072	0.168
NZO	0.038	-0.092
PWK	-0.013	0.493
H37Rv_KO_CtpC	0.887	1.776
H37Rv_KO_CtpD	0.158	1.744
H37Rv_KO_Rv1272	0.568	1.339
H37Rv_KO_SugABC	0.301	1.148
H37Rv_KO_MbtN	0.92	1.293
Trans05	1.347	1.398
macrophage_unactivated	0.139	1.07
IL1	-0.792	-0.258
Rapamycin	-0.344	0.034
Tcell	-0.15	0.127
GMCSF	0.364	0.689
IFNab	-0.369	1.037
IFNg	0.024	0.532
IFNg_GMCSF1	-0.264	0.421
Rv1432_day32	0.068	0.325
Rv1565c_day32	0.019	-0.081
secA2_input	-0.753	-0.189
delta_Rv3594	0.044	0.196
delta_Rv3717	-0.059	-0.024
delta_Rv3811	-0.123	-0.094
delta_Rv0954	-0.69	-1.215
PonA1	-0.125	-0.552
EccD1_KO	0.158	0.428
EspI_KO	-0.08	1.352
PE35_KO	0.099	0.965
PPE68_KO	0.067	0.323
glycerol2	0.115	0.951
lignocerate	-0.438	0.854
oleate	0.644	0.994
phosphatidylcholine	0.409	1.071
acetate	-1.159	0.216
glucAc	-1.522	0.243
Rv0950ko	0.075	0.452
Rv1096ko	-0.995	-0.651
Rv3684ko	-0.305	-0.157
delta_otsA_trehalose	-0.338	0.405