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 Rv1974/-

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

	Rv1377c/-	Rv1974/-
Fe_supp_jason_reseq	1.35	0.633
low_pH_jason_reseq	-0.952	0.015
NO_jason_reseq	0.042	-0.559
B6_jason_reseq	-0.018	1.201
MHCII_jason_reseq	0.206	1.739
Isoniazid02	0.658	0.106
Rifampicin4	0.81	-0.829
Ethambutol3	0.209	-0.062
Meropenem3	0.987	1.264
Vancomycin16	1.035	0.066
Rv2680_day32	0.142	1.367
H37Rv_KO_MarP	0.323	-0.95
hypoxia_3wks	-0.574	-0.801
hypoxia_6wks	-0.819	-0.319
glycerol	0.496	-0.471
cholesterol	0.857	-0.672
AJ	0.032	-0.346
Bibs02	0.617	0.268
Bibs02c	-0.462	0.311
BL6	-0.465	-1.414
BL6a	0.0	-0.199
BXD01	0.335	-1.518
BXD010	0.071	-2.27
BXD011	-0.185	-1.543
BXD03	0.278	-1.714
BXD04	-0.524	-2.232
BXD05	-0.5	-0.87
BXD06	0.083	-1.465
BXD07	0.14	-1.398
BXD08	0.281	-1.622
BXD09	-0.18	-1.346
CAST	0.554	0.085
CCcont	0.021	-1.236
DS01	-0.481	0.241
DS02	0.734	0.117
DS04	0.645	-0.141
DS0c	0.903	0.006
GP01	0.576	0.371
GP02	-0.276	-0.885
GP0c	0.632	-1.154
NOD	1.84	-0.163
NZO	0.879	0.162
PWK	0.122	-0.274
H37Rv_KO_CtpC	-0.759	-1.474
H37Rv_KO_CtpD	-1.164	-1.606
H37Rv_KO_Rv1272	-1.011	-1.434
H37Rv_KO_SugABC	-0.543	-0.667
H37Rv_KO_MbtN	-1.402	-2.367
Trans05	-0.243	-1.444
macrophage_unactivated	-0.439	-1.162
IL1	0.492	-0.688
Rapamycin	0.479	-1.409
Tcell	0.345	-1.466
GMCSF	0.198	-1.288
IFNab	0.414	-0.98
IFNg	0.257	-0.818
IFNg_GMCSF1	-0.176	-0.962
Rv1432_day32	-0.437	-1.304
Rv1565c_day32	-0.34	0.156
secA2_input	0.163	0.167
delta_Rv3594	0.502	0.941
delta_Rv3717	0.098	0.837
delta_Rv3811	0.138	1.031
delta_Rv0954	0.928	1.516
PonA1	1.019	0.54
EccD1_KO	0.76	0.408
EspI_KO	-0.627	1.768
PE35_KO	0.35	1.053
PPE68_KO	0.195	0.464
glycerol2	0.326	0.993
lignocerate	0.878	1.427
oleate	-0.535	-0.781
phosphatidylcholine	1.2	1.108
acetate	1.406	0.828
glucAc	1.266	1.372
Rv0950ko	1.381	-0.22
Rv1096ko	0.811	-0.383
Rv3684ko	0.881	1.349
delta_otsA_trehalose	0.974	-0.124