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 Rv0971c/echA7:

update plot	correlation	link to info on gene
Rv1020/mfd	(cc=0.6365)	info on Rv1020/mfd
Rv0844c/narL	(cc=0.618)	info on Rv0844c/narL
Rv3210c/-	(cc=0.5775)	info on Rv3210c/-
Rv2545/vapB18	(cc=0.5649)	info on Rv2545/vapB18
Rv1787/PPE25	(cc=0.5609)	info on Rv1787/PPE25
Rv1051c/-	(cc=0.5574)	info on Rv1051c/-
Rv2161c/-	(cc=0.5443)	info on Rv2161c/-
Rv0742/PE_PGRS8	(cc=0.5395)	info on Rv0742/PE_PGRS8
Rv1994c/cmtR	(cc=0.5331)	info on Rv1994c/cmtR
Rv0222/echA1	(cc=0.5292)	info on Rv0222/echA1

Correlation of Rv0971c/echA7 with Rv1994c/cmtR

Normalized LFCs for Rv0971c/echA7:
(description and provenance of datasets)

	Rv0971c/echA7	Rv1994c/cmtR
Fe_supp_jason_reseq	-0.535	2.557
low_pH_jason_reseq	-1.877	-1.939
NO_jason_reseq	0.297	-0.417
B6_jason_reseq	-2.077	-0.375
MHCII_jason_reseq	-1.582	0.25
Isoniazid02	0.243	-0.081
Rifampicin4	1.308	-0.19
Ethambutol3	1.133	0.306
Meropenem3	0.879	0.08
Vancomycin16	0.117	-0.382
Rv2680_day32	-0.022	-1.033
H37Rv_KO_MarP	0.378	0.285
hypoxia_3wks	-0.694	-0.953
hypoxia_6wks	-0.867	-0.95
glycerol	1.375	0.531
cholesterol	0.372	3.294
AJ	0.299	-0.585
Bibs02	0.29	1.84
Bibs02c	-0.186	1.437
BL6	1.067	0.891
BL6a	1.085	1.712
BXD01	0.483	1.096
BXD010	1.122	1.277
BXD011	0.698	1.101
BXD03	1.026	1.854
BXD04	0.531	0.97
BXD05	1.583	1.133
BXD06	0.447	1.729
BXD07	1.171	1.212
BXD08	1.757	1.732
BXD09	1.271	1.59
CAST	0.561	-0.37
CCcont	1.056	2.116
DS01	0.34	0.527
DS02	0.934	-1.925
DS04	2.478	0.885
DS0c	-0.591	-1.92
GP01	0.185	0.843
GP02	1.92	1.97
GP0c	2.155	1.655
NOD	-0.875	-2.265
NZO	-0.932	-1.546
PWK	0.53	-0.905
H37Rv_KO_CtpC	1.818	1.982
H37Rv_KO_CtpD	2.045	2.558
H37Rv_KO_Rv1272	1.674	2.248
H37Rv_KO_SugABC	2.493	0.159
H37Rv_KO_MbtN	0.871	0.977
Trans05	1.229	2.386
macrophage_unactivated	0.641	1.155
IL1	0.982	-0.05
Rapamycin	1.169	-0.755
Tcell	-0.179	0.381
GMCSF	0.298	-0.385
IFNab	0.707	1.149
IFNg	0.166	-0.714
IFNg_GMCSF1	0.71	0.468
Rv1432_day32	0.595	0.619
Rv1565c_day32	-0.847	-1.447
secA2_input	0.92	0.396
delta_Rv3594	-0.902	-1.519
delta_Rv3717	-0.526	0.2
delta_Rv3811	-0.815	-0.593
delta_Rv0954	-0.508	-0.47
PonA1	-1.144	-0.957
EccD1_KO	0.0	0.197
EspI_KO	1.298	0.933
PE35_KO	-0.044	0.925
PPE68_KO	-1.638	0.656
glycerol2	0.116	0.709
lignocerate	0.613	0.505
oleate	-0.688	-0.829
phosphatidylcholine	0.332	-0.458
acetate	0.712	1.184
glucAc	0.885	1.066
Rv0950ko	0.476	1.007
Rv1096ko	1.158	-0.437
Rv3684ko	1.867	0.576
delta_otsA_trehalose	0.768	-0.138