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 Rv0403c/mmpS1

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

	Rv1949c/-	Rv0403c/mmpS1
Fe_supp_jason_reseq	0.311	0.043
low_pH_jason_reseq	-0.689	-0.535
NO_jason_reseq	0.239	0.344
B6_jason_reseq	-0.692	-2.182
MHCII_jason_reseq	-0.969	-0.931
Isoniazid02	-0.113	-0.153
Rifampicin4	-0.011	0.122
Ethambutol3	0.047	-0.152
Meropenem3	0.629	-0.15
Vancomycin16	-0.377	0.305
Rv2680_day32	0.057	-0.918
H37Rv_KO_MarP	0.48	0.079
hypoxia_3wks	0.303	0.905
hypoxia_6wks	-0.547	-0.198
glycerol	-0.888	-2.319
cholesterol	0.519	-0.398
AJ	-0.044	-0.079
Bibs02	0.258	0.854
Bibs02c	-0.341	0.136
BL6	-0.195	-0.141
BL6a	-0.142	0.722
BXD01	0.438	0.757
BXD010	-0.041	0.411
BXD011	0.194	0.87
BXD03	0.242	1.436
BXD04	0.926	0.891
BXD05	0.283	0.582
BXD06	0.033	0.821
BXD07	0.226	0.524
BXD08	0.742	0.862
BXD09	0.274	0.778
CAST	0.085	0.15
CCcont	-0.573	-0.285
DS01	0.074	0.325
DS02	0.041	0.337
DS04	-0.675	1.098
DS0c	-0.402	0.482
GP01	0.819	0.647
GP02	0.762	1.58
GP0c	-0.221	0.391
NOD	-0.072	-0.187
NZO	0.038	0.529
PWK	-0.013	0.415
H37Rv_KO_CtpC	0.887	0.807
H37Rv_KO_CtpD	0.158	0.656
H37Rv_KO_Rv1272	0.568	0.592
H37Rv_KO_SugABC	0.301	0.938
H37Rv_KO_MbtN	0.92	-0.329
Trans05	1.347	1.176
macrophage_unactivated	0.139	0.335
IL1	-0.792	-0.543
Rapamycin	-0.344	-0.908
Tcell	-0.15	0.283
GMCSF	0.364	-0.544
IFNab	-0.369	-0.723
IFNg	0.024	-0.187
IFNg_GMCSF1	-0.264	-1.496
Rv1432_day32	0.068	-0.089
Rv1565c_day32	0.019	-0.344
secA2_input	-0.753	-1.406
delta_Rv3594	0.044	-0.17
delta_Rv3717	-0.059	-0.278
delta_Rv3811	-0.123	-0.109
delta_Rv0954	-0.69	0.654
PonA1	-0.125	0.494
EccD1_KO	0.158	-0.783
EspI_KO	-0.08	0.602
PE35_KO	0.099	-0.309
PPE68_KO	0.067	-0.166
glycerol2	0.115	0.161
lignocerate	-0.438	-0.567
oleate	0.644	0.457
phosphatidylcholine	0.409	0.245
acetate	-1.159	-1.2
glucAc	-1.522	-1.626
Rv0950ko	0.075	0.163
Rv1096ko	-0.995	-0.971
Rv3684ko	-0.305	-0.278
delta_otsA_trehalose	-0.338	-0.474