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 Rv0138/-:

update plot	correlation	link to info on gene
Rv3784/-	(cc=0.601)	info on Rv3784/-
Rv3440c/-	(cc=0.519)	info on Rv3440c/-
Rv0454/-	(cc=0.4943)	info on Rv0454/-
Rv3585/radA	(cc=0.4742)	info on Rv3585/radA
Rv3879c/espK	(cc=0.4715)	info on Rv3879c/espK
Rv3018c/PPE46	(cc=0.4683)	info on Rv3018c/PPE46
Rv1319c/-	(cc=0.4546)	info on Rv1319c/-
Rv1249c/-	(cc=0.4538)	info on Rv1249c/-
Rv3729/-	(cc=0.4481)	info on Rv3729/-
Rv3339c/icd1	(cc=0.4473)	info on Rv3339c/icd1

Correlation of Rv0138/- with Rv3339c/icd1

Normalized LFCs for Rv0138/-:
(description and provenance of datasets)

	Rv0138/-	Rv3339c/icd1
Fe_supp_jason_reseq	-0.759	0.103
low_pH_jason_reseq	-0.778	0.661
NO_jason_reseq	-0.131	0.856
B6_jason_reseq	-0.133	0.323
MHCII_jason_reseq	-0.222	-0.011
Isoniazid02	1.099	-0.38
Rifampicin4	-0.398	0.208
Ethambutol3	2.393	1.816
Meropenem3	0.652	0.192
Vancomycin16	-0.096	0.13
Rv2680_day32	1.396	0.658
H37Rv_KO_MarP	0.306	0.387
hypoxia_3wks	0.187	-0.315
hypoxia_6wks	0.236	-0.144
glycerol	0.767	0.0
cholesterol	0.272	0.121
AJ	0.635	0.6
Bibs02	0.045	0.265
Bibs02c	0.499	1.164
BL6	-0.08	0.143
BL6a	0.346	0.946
BXD01	0.259	0.548
BXD010	-0.77	0.251
BXD011	0.054	0.38
BXD03	0.329	-0.227
BXD04	-0.094	0.377
BXD05	0.052	0.143
BXD06	-0.024	0.372
BXD07	0.196	0.583
BXD08	-0.231	0.152
BXD09	-0.547	0.326
CAST	0.627	0.804
CCcont	0.037	0.0
DS01	-0.139	0.659
DS02	-0.274	0.411
DS04	0.364	0.281
DS0c	0.009	0.198
GP01	-0.302	-0.283
GP02	0.915	0.063
GP0c	0.219	0.388
NOD	-0.116	0.919
NZO	0.386	-0.017
PWK	0.22	-0.141
H37Rv_KO_CtpC	0.305	1.252
H37Rv_KO_CtpD	1.534	1.067
H37Rv_KO_Rv1272	0.13	0.748
H37Rv_KO_SugABC	0.987	1.045
H37Rv_KO_MbtN	0.582	0.782
Trans05	0.136	-0.058
macrophage_unactivated	0.846	0.855
IL1	-0.442	0.036
Rapamycin	0.322	0.114
Tcell	-0.44	0.534
GMCSF	-0.143	0.346
IFNab	-0.759	0.112
IFNg	0.043	-0.136
IFNg_GMCSF1	0.459	0.038
Rv1432_day32	0.67	1.538
Rv1565c_day32	-0.924	0.278
secA2_input	-0.348	-0.441
delta_Rv3594	-0.791	-0.45
delta_Rv3717	-0.395	-0.693
delta_Rv3811	-0.714	-0.626
delta_Rv0954	-1.23	-1.433
PonA1	-0.491	-1.36
EccD1_KO	0.089	-0.309
EspI_KO	-0.391	0.026
PE35_KO	0.07	-0.505
PPE68_KO	-0.243	0.058
glycerol2	0.647	-0.181
lignocerate	0.549	-0.348
oleate	0.275	0.01
phosphatidylcholine	0.37	-0.255
acetate	0.291	-1.036
glucAc	0.318	-0.59
Rv0950ko	-0.039	-0.13
Rv1096ko	-0.196	-0.13
Rv3684ko	0.17	-0.586
delta_otsA_trehalose	-0.057	0.009