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 Rv3045/adhC:

update plot	correlation	link to info on gene
Rv3133c/devR	(cc=0.6328)	info on Rv3133c/devR
Rv3814c/-	(cc=0.6194)	info on Rv3814c/-
Rv3600c/-	(cc=0.5849)	info on Rv3600c/-
Rv1633/uvrB	(cc=0.5797)	info on Rv1633/uvrB
Rv3720/-	(cc=0.5746)	info on Rv3720/-
Rv2299c/htpG	(cc=0.5652)	info on Rv2299c/htpG
Rv3397c/phyA	(cc=0.5318)	info on Rv3397c/phyA
Rv0821c/phoY2	(cc=0.5312)	info on Rv0821c/phoY2
Rv0073/-	(cc=0.53)	info on Rv0073/-
Rv2179c/-	(cc=0.5232)	info on Rv2179c/-

Correlation of Rv3045/adhC with Rv3814c/-

Normalized LFCs for Rv3045/adhC:
(description and provenance of datasets)

	Rv3045/adhC	Rv3814c/-
Fe_supp_jason_reseq	1.118	0.843
low_pH_jason_reseq	1.246	-0.532
NO_jason_reseq	-1.987	-3.221
B6_jason_reseq	-0.069	1.44
MHCII_jason_reseq	-0.36	0.822
Isoniazid02	-2.177	-1.988
Rifampicin4	-0.65	-2.385
Ethambutol3	-0.829	-0.117
Meropenem3	-2.737	-2.199
Vancomycin16	-2.43	-2.555
Rv2680_day32	0.379	-0.695
H37Rv_KO_MarP	0.629	0.586
hypoxia_3wks	-4.115	0.283
hypoxia_6wks	-2.023	-0.654
glycerol	1.36	1.088
cholesterol	0.976	1.401
AJ	0.176	-0.116
Bibs02	-0.189	0.436
Bibs02c	0.844	1.246
BL6	1.377	2.058
BL6a	0.904	1.597
BXD01	1.168	1.763
BXD010	0.752	2.224
BXD011	1.184	1.226
BXD03	1.321	0.36
BXD04	1.514	1.847
BXD05	1.554	1.45
BXD06	1.018	1.617
BXD07	1.159	1.823
BXD08	1.052	2.195
BXD09	1.65	1.283
CAST	0.454	0.48
CCcont	1.772	1.762
DS01	1.107	0.674
DS02	0.498	1.249
DS04	0.981	0.202
DS0c	1.07	1.662
GP01	-0.622	1.015
GP02	-0.726	1.175
GP0c	0.169	1.283
NOD	0.652	0.4
NZO	0.259	-1.049
PWK	-0.161	0.247
H37Rv_KO_CtpC	0.612	0.522
H37Rv_KO_CtpD	1.994	1.78
H37Rv_KO_Rv1272	1.344	1.986
H37Rv_KO_SugABC	1.218	1.432
H37Rv_KO_MbtN	-0.107	1.409
Trans05	0.361	2.239
macrophage_unactivated	2.001	0.363
IL1	-0.469	-0.839
Rapamycin	0.832	-0.144
Tcell	0.463	0.798
GMCSF	0.129	-0.605
IFNab	0.629	-0.469
IFNg	-0.497	-0.909
IFNg_GMCSF1	-0.079	-0.456
Rv1432_day32	-1.061	0.465
Rv1565c_day32	0.81	0.733
secA2_input	0.534	-0.947
delta_Rv3594	0.298	0.988
delta_Rv3717	0.279	1.559
delta_Rv3811	0.785	1.277
delta_Rv0954	-0.125	0.729
PonA1	0.172	-0.233
EccD1_KO	0.217	0.855
EspI_KO	0.704	0.046
PE35_KO	-0.242	0.047
PPE68_KO	-0.176	0.518
glycerol2	0.163	1.447
lignocerate	0.688	1.391
oleate	-0.106	0.15
phosphatidylcholine	0.468	1.119
acetate	-0.081	1.275
glucAc	0.496	0.865
Rv0950ko	0.199	0.733
Rv1096ko	0.82	0.121
Rv3684ko	1.281	0.426
delta_otsA_trehalose	-1.408	-1.489