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 Rv0397A/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.6558)	info on Rv2430c/PPE41
Rv3218/-	(cc=0.6131)	info on Rv3218/-
Rv3694c/-	(cc=0.603)	info on Rv3694c/-
Rv1551/plsB1	(cc=0.6019)	info on Rv1551/plsB1
Rv1662/pks8	(cc=0.5834)	info on Rv1662/pks8
Rv0231/fadE4	(cc=0.5773)	info on Rv0231/fadE4
Rv3567c/hsaB	(cc=0.576)	info on Rv3567c/hsaB
Rv2777c/-	(cc=0.5711)	info on Rv2777c/-
Rv3116/moeB2	(cc=0.5679)	info on Rv3116/moeB2
Rv1504c/-	(cc=0.5661)	info on Rv1504c/-

Correlation of Rv0397A/- with Rv3567c/hsaB

Normalized LFCs for Rv0397A/-:
(description and provenance of datasets)

	Rv0397A/-	Rv3567c/hsaB
Fe_supp_jason_reseq	0.655	1.463
low_pH_jason_reseq	-2.044	0.51
NO_jason_reseq	0.108	0.977
B6_jason_reseq	-1.253	-1.142
MHCII_jason_reseq	-0.813	-1.006
Isoniazid02	-2.242	-0.112
Rifampicin4	-2.071	-1.262
Ethambutol3	-1.31	-0.406
Meropenem3	-1.388	0.143
Vancomycin16	-1.464	-0.239
Rv2680_day32	-2.129	-1.754
H37Rv_KO_MarP	0.557	-0.329
hypoxia_3wks	0.371	-0.945
hypoxia_6wks	-0.209	-1.639
glycerol	-0.837	1.517
cholesterol	-1.69	-0.972
AJ	0.514	0.0
Bibs02	-0.034	-0.725
Bibs02c	-1.052	-1.005
BL6	0.714	2.736
BL6a	0.696	2.043
BXD01	1.016	3.204
BXD010	1.88	2.702
BXD011	2.276	1.056
BXD03	1.3	2.494
BXD04	1.568	1.966
BXD05	0.473	1.417
BXD06	1.729	2.5
BXD07	1.667	3.11
BXD08	0.335	2.308
BXD09	1.569	2.284
CAST	-1.23	0.123
CCcont	1.256	2.712
DS01	0.132	-0.274
DS02	1.404	1.749
DS04	-1.098	0.0
DS0c	0.933	1.32
GP01	1.24	1.115
GP02	1.347	0.045
GP0c	-0.157	1.516
NOD	-0.867	0.0
NZO	-1.263	-0.358
PWK	1.346	0.867
H37Rv_KO_CtpC	1.657	0.885
H37Rv_KO_CtpD	-1.275	1.565
H37Rv_KO_Rv1272	2.524	0.673
H37Rv_KO_SugABC	0.293	1.688
H37Rv_KO_MbtN	1.94	0.206
Trans05	1.93	0.712
macrophage_unactivated	0.477	-0.202
IL1	0.303	1.071
Rapamycin	0.908	0.896
Tcell	-0.036	0.984
GMCSF	1.13	1.479
IFNab	0.762	-0.154
IFNg	-0.516	-0.347
IFNg_GMCSF1	0.321	-1.2
Rv1432_day32	-0.107	-0.88
Rv1565c_day32	0.144	0.308
secA2_input	0.803	1.431
delta_Rv3594	-1.025	-2.301
delta_Rv3717	-1.007	-0.883
delta_Rv3811	-0.329	-2.678
delta_Rv0954	-1.194	-0.447
PonA1	-0.792	0.451
EccD1_KO	-1.108	-0.362
EspI_KO	-0.106	0.348
PE35_KO	-0.143	0.578
PPE68_KO	-0.486	0.573
glycerol2	-0.311	0.657
lignocerate	-1.053	0.367
oleate	0.133	0.509
phosphatidylcholine	-0.276	0.626
acetate	-0.349	0.186
glucAc	-0.937	0.184
Rv0950ko	0.286	2.044
Rv1096ko	0.247	1.906
Rv3684ko	0.092	0.796
delta_otsA_trehalose	0.564	0.05