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 Rv2892c/PPE45:

update plot	correlation	link to info on gene
Rv0551c/fadD8	(cc=0.5185)	info on Rv0551c/fadD8
Rv2191/-	(cc=0.4812)	info on Rv2191/-
Rv0855/far	(cc=0.4759)	info on Rv0855/far
Rv0941c/-	(cc=0.4615)	info on Rv0941c/-
Rv1513/-	(cc=0.4592)	info on Rv1513/-
Rv0572c/-	(cc=0.4528)	info on Rv0572c/-
Rv1966/mce3A	(cc=0.4464)	info on Rv1966/mce3A
Rv1861/-	(cc=0.444)	info on Rv1861/-
Rv0589/mce2A	(cc=0.4417)	info on Rv0589/mce2A
Rv3378c/-	(cc=0.4331)	info on Rv3378c/-

Correlation of Rv2892c/PPE45 with Rv0941c/-

Normalized LFCs for Rv2892c/PPE45:
(description and provenance of datasets)

	Rv2892c/PPE45	Rv0941c/-
Fe_supp_jason_reseq	-0.267	-0.985
low_pH_jason_reseq	-0.482	-0.522
NO_jason_reseq	-0.192	0.302
B6_jason_reseq	-0.296	-0.074
MHCII_jason_reseq	0.057	-0.103
Isoniazid02	0.501	0.604
Rifampicin4	0.644	0.579
Ethambutol3	0.241	0.759
Meropenem3	0.478	0.357
Vancomycin16	0.592	1.021
Rv2680_day32	0.499	-0.36
H37Rv_KO_MarP	-0.277	0.426
hypoxia_3wks	0.73	0.327
hypoxia_6wks	0.94	0.013
glycerol	-0.506	0.527
cholesterol	-0.862	0.182
AJ	0.182	-0.057
Bibs02	0.221	0.936
Bibs02c	-0.186	-0.496
BL6	0.487	0.184
BL6a	0.42	-0.1
BXD01	0.656	0.573
BXD010	0.4	0.679
BXD011	0.248	0.543
BXD03	0.348	0.116
BXD04	0.005	-0.248
BXD05	0.253	0.53
BXD06	0.672	0.327
BXD07	0.551	0.174
BXD08	0.863	0.172
BXD09	0.674	0.107
CAST	0.01	-0.277
CCcont	0.129	0.065
DS01	0.157	0.0
DS02	-0.246	0.774
DS04	1.483	0.878
DS0c	0.431	0.262
GP01	0.387	0.175
GP02	0.964	0.951
GP0c	0.263	0.503
NOD	0.314	0.231
NZO	-0.15	0.409
PWK	-0.502	-0.465
H37Rv_KO_CtpC	-0.199	0.108
H37Rv_KO_CtpD	0.351	0.898
H37Rv_KO_Rv1272	0.386	1.642
H37Rv_KO_SugABC	0.38	0.765
H37Rv_KO_MbtN	-0.27	-0.947
Trans05	0.282	1.07
macrophage_unactivated	0.092	-0.051
IL1	0.039	-0.047
Rapamycin	-0.147	-0.359
Tcell	0.124	0.684
GMCSF	-0.011	0.536
IFNab	-0.266	-0.354
IFNg	0.166	0.39
IFNg_GMCSF1	-0.317	-0.182
Rv1432_day32	-0.613	-0.262
Rv1565c_day32	0.659	0.889
secA2_input	0.02	0.672
delta_Rv3594	0.0	0.366
delta_Rv3717	-0.322	0.545
delta_Rv3811	-0.595	0.626
delta_Rv0954	0.155	0.559
PonA1	-0.182	0.089
EccD1_KO	0.71	0.335
EspI_KO	0.63	0.468
PE35_KO	-0.038	0.709
PPE68_KO	0.102	0.736
glycerol2	0.509	-0.006
lignocerate	0.349	-0.16
oleate	0.885	-0.186
phosphatidylcholine	0.798	0.069
acetate	-0.776	-0.703
glucAc	-0.792	-0.533
Rv0950ko	1.2	1.269
Rv1096ko	1.14	1.004
Rv3684ko	0.495	0.907
delta_otsA_trehalose	2.157	0.811