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 Rv1797/eccE5:

update plot	correlation	link to info on gene
Rv1783/eccC5	(cc=0.9797)	info on Rv1783/eccC5
Rv1782/eccB5	(cc=0.9136)	info on Rv1782/eccB5
Rv1794/-	(cc=0.8868)	info on Rv1794/-
Rv1796/mycP5	(cc=0.8793)	info on Rv1796/mycP5
Rv1795/eccD5	(cc=0.8763)	info on Rv1795/eccD5
Rv0537c/-	(cc=0.4633)	info on Rv0537c/-
Rv1267c/embR	(cc=0.4281)	info on Rv1267c/embR
Rv1063c/-	(cc=0.4231)	info on Rv1063c/-
Rv0538/-	(cc=0.4035)	info on Rv0538/-
Rv1532c/-	(cc=0.3928)	info on Rv1532c/-

Correlation of Rv1797/eccE5 with Rv1063c/-

Normalized LFCs for Rv1797/eccE5:
(description and provenance of datasets)

	Rv1797/eccE5	Rv1063c/-
Fe_supp_jason_reseq	0.218	-0.021
low_pH_jason_reseq	0.0	-0.912
NO_jason_reseq	0.0	-0.953
B6_jason_reseq	0.0	-0.292
MHCII_jason_reseq	0.0	0.229
Isoniazid02	0.0	1.12
Rifampicin4	0.0	-0.217
Ethambutol3	0.0	0.815
Meropenem3	0.0	-0.047
Vancomycin16	0.0	-0.077
Rv2680_day32	0.0	0.393
H37Rv_KO_MarP	6.0	0.851
hypoxia_3wks	0.0	-0.494
hypoxia_6wks	0.0	-0.852
glycerol	0.0	-0.082
cholesterol	0.145	0.3
AJ	0.0	-0.269
Bibs02	0.0	0.256
Bibs02c	0.0	0.364
BL6	0.0	-0.493
BL6a	0.0	-0.143
BXD01	0.0	-0.108
BXD010	0.0	-0.486
BXD011	0.0	-0.297
BXD03	0.0	-0.041
BXD04	0.0	-0.487
BXD05	0.0	-0.57
BXD06	0.0	-0.713
BXD07	0.0	-0.716
BXD08	0.0	0.541
BXD09	0.0	-0.31
CAST	0.0	0.155
CCcont	0.149	-0.14
DS01	0.0	0.602
DS02	0.0	0.503
DS04	0.0	-0.246
DS0c	0.0	0.085
GP01	3.42	1.423
GP02	3.65	1.24
GP0c	4.084	1.671
NOD	0.0	2.11
NZO	0.0	-0.392
PWK	0.0	-0.162
H37Rv_KO_CtpC	0.0	-0.281
H37Rv_KO_CtpD	0.0	-0.785
H37Rv_KO_Rv1272	0.0	0.159
H37Rv_KO_SugABC	0.0	0.873
H37Rv_KO_MbtN	0.0	-0.131
Trans05	0.0	0.051
macrophage_unactivated	0.0	0.268
IL1	0.0	-0.439
Rapamycin	0.0	-0.221
Tcell	0.0	0.932
GMCSF	0.0	0.137
IFNab	0.0	0.686
IFNg	0.0	0.273
IFNg_GMCSF1	0.0	0.163
Rv1432_day32	0.0	-0.763
Rv1565c_day32	0.0	0.073
secA2_input	0.0	-0.111
delta_Rv3594	0.0	0.961
delta_Rv3717	0.331	0.24
delta_Rv3811	0.0	0.021
delta_Rv0954	1.196	0.836
PonA1	0.0	-0.017
EccD1_KO	0.0	-0.164
EspI_KO	-0.394	0.462
PE35_KO	0.0	-0.108
PPE68_KO	-0.442	0.0
glycerol2	0.0	-0.251
lignocerate	0.0	-0.089
oleate	0.0	-0.401
phosphatidylcholine	0.0	-0.814
acetate	0.0	-0.199
glucAc	0.0	-0.383
Rv0950ko	0.0	-0.039
Rv1096ko	0.38	1.046
Rv3684ko	-0.452	1.513
delta_otsA_trehalose	0.0	-1.127