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 Rv1377c/-:

update plot	correlation	link to info on gene
Rv0329c/-	(cc=0.4981)	info on Rv0329c/-
Rv0664/vapB8	(cc=0.4956)	info on Rv0664/vapB8
Rv2499c/-	(cc=0.4812)	info on Rv2499c/-
Rv2009/vapB15	(cc=0.478)	info on Rv2009/vapB15
Rv2802c/-	(cc=0.4693)	info on Rv2802c/-
Rv1192/-	(cc=0.458)	info on Rv1192/-
Rv1186c/-	(cc=0.4524)	info on Rv1186c/-
Rv1974/-	(cc=0.4448)	info on Rv1974/-
Rv1731/gabD2	(cc=0.4447)	info on Rv1731/gabD2
Rv2813/-	(cc=0.4369)	info on Rv2813/-

Correlation of Rv1377c/- with Rv2813/-

Normalized LFCs for Rv1377c/-:
(description and provenance of datasets)

	Rv1377c/-	Rv2813/-
Fe_supp_jason_reseq	1.35	0.747
low_pH_jason_reseq	-0.952	-0.43
NO_jason_reseq	0.042	-1.735
B6_jason_reseq	-0.018	-0.733
MHCII_jason_reseq	0.206	-0.396
Isoniazid02	0.658	0.054
Rifampicin4	0.81	0.1
Ethambutol3	0.209	-0.474
Meropenem3	0.987	-0.724
Vancomycin16	1.035	0.292
Rv2680_day32	0.142	-0.423
H37Rv_KO_MarP	0.323	0.796
hypoxia_3wks	-0.574	-0.159
hypoxia_6wks	-0.819	-1.566
glycerol	0.496	1.164
cholesterol	0.857	0.835
AJ	0.032	0.299
Bibs02	0.617	-0.517
Bibs02c	-0.462	0.0
BL6	-0.465	0.575
BL6a	0.0	-0.422
BXD01	0.335	0.552
BXD010	0.071	-0.072
BXD011	-0.185	0.63
BXD03	0.278	0.998
BXD04	-0.524	-0.305
BXD05	-0.5	0.269
BXD06	0.083	0.438
BXD07	0.14	0.637
BXD08	0.281	0.139
BXD09	-0.18	0.81
CAST	0.554	0.707
CCcont	0.021	0.997
DS01	-0.481	0.725
DS02	0.734	0.714
DS04	0.645	0.474
DS0c	0.903	0.058
GP01	0.576	-1.378
GP02	-0.276	-1.078
GP0c	0.632	-1.263
NOD	1.84	3.207
NZO	0.879	0.487
PWK	0.122	0.794
H37Rv_KO_CtpC	-0.759	0.169
H37Rv_KO_CtpD	-1.164	-0.85
H37Rv_KO_Rv1272	-1.011	-0.74
H37Rv_KO_SugABC	-0.543	0.152
H37Rv_KO_MbtN	-1.402	-1.242
Trans05	-0.243	-0.074
macrophage_unactivated	-0.439	1.411
IL1	0.492	0.632
Rapamycin	0.479	1.145
Tcell	0.345	2.379
GMCSF	0.198	0.985
IFNab	0.414	0.81
IFNg	0.257	2.157
IFNg_GMCSF1	-0.176	0.842
Rv1432_day32	-0.437	0.321
Rv1565c_day32	-0.34	1.03
secA2_input	0.163	0.2
delta_Rv3594	0.502	1.216
delta_Rv3717	0.098	0.938
delta_Rv3811	0.138	-0.269
delta_Rv0954	0.928	0.207
PonA1	1.019	1.027
EccD1_KO	0.76	1.868
EspI_KO	-0.627	1.218
PE35_KO	0.35	1.657
PPE68_KO	0.195	2.326
glycerol2	0.326	2.058
lignocerate	0.878	2.828
oleate	-0.535	-0.163
phosphatidylcholine	1.2	2.417
acetate	1.406	4.234
glucAc	1.266	3.129
Rv0950ko	1.381	-0.175
Rv1096ko	0.811	1.056
Rv3684ko	0.881	-0.806
delta_otsA_trehalose	0.974	0.15