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 Rv1532c/-

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

	Rv1797/eccE5	Rv1532c/-
Fe_supp_jason_reseq	0.218	-1.108
low_pH_jason_reseq	0.0	-2.668
NO_jason_reseq	0.0	-0.32
B6_jason_reseq	0.0	-0.245
MHCII_jason_reseq	0.0	0.299
Isoniazid02	0.0	0.662
Rifampicin4	0.0	1.79
Ethambutol3	0.0	0.028
Meropenem3	0.0	0.134
Vancomycin16	0.0	0.929
Rv2680_day32	0.0	2.592
H37Rv_KO_MarP	6.0	1.984
hypoxia_3wks	0.0	1.408
hypoxia_6wks	0.0	-0.188
glycerol	0.0	-0.408
cholesterol	0.145	-0.398
AJ	0.0	-0.054
Bibs02	0.0	0.162
Bibs02c	0.0	-0.805
BL6	0.0	-0.757
BL6a	0.0	0.044
BXD01	0.0	-0.263
BXD010	0.0	-0.724
BXD011	0.0	-0.123
BXD03	0.0	0.568
BXD04	0.0	-1.235
BXD05	0.0	0.636
BXD06	0.0	0.54
BXD07	0.0	-0.016
BXD08	0.0	0.313
BXD09	0.0	0.251
CAST	0.0	0.584
CCcont	0.149	-0.966
DS01	0.0	0.642
DS02	0.0	-1.454
DS04	0.0	1.093
DS0c	0.0	-1.7
GP01	3.42	2.789
GP02	3.65	1.281
GP0c	4.084	1.575
NOD	0.0	0.763
NZO	0.0	0.611
PWK	0.0	-0.854
H37Rv_KO_CtpC	0.0	0.744
H37Rv_KO_CtpD	0.0	-1.764
H37Rv_KO_Rv1272	0.0	-0.519
H37Rv_KO_SugABC	0.0	-1.678
H37Rv_KO_MbtN	0.0	0.704
Trans05	0.0	-0.301
macrophage_unactivated	0.0	-0.571
IL1	0.0	0.801
Rapamycin	0.0	-0.224
Tcell	0.0	-0.642
GMCSF	0.0	-2.218
IFNab	0.0	0.085
IFNg	0.0	0.625
IFNg_GMCSF1	0.0	-0.619
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.0	-1.769
delta_Rv3594	0.0	-0.029
delta_Rv3717	0.331	1.372
delta_Rv3811	0.0	0.33
delta_Rv0954	1.196	0.182
PonA1	0.0	-0.88
EccD1_KO	0.0	1.891
EspI_KO	-0.394	1.58
PE35_KO	0.0	0.738
PPE68_KO	-0.442	0.144
glycerol2	0.0	0.241
lignocerate	0.0	-1.058
oleate	0.0	0.502
phosphatidylcholine	0.0	-0.081
acetate	0.0	-1.342
glucAc	0.0	-1.057
Rv0950ko	0.0	-1.746
Rv1096ko	0.38	-1.375
Rv3684ko	-0.452	-0.927
delta_otsA_trehalose	0.0	0.046