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 Rv0907/-:

update plot	correlation	link to info on gene
Rv0112/gca	(cc=0.6282)	info on Rv0112/gca
Rv0822c/-	(cc=0.5699)	info on Rv0822c/-
Rv0454/-	(cc=0.5353)	info on Rv0454/-
Rv2510c/-	(cc=0.5093)	info on Rv2510c/-
Rv3427c/-	(cc=0.4965)	info on Rv3427c/-
Rv0930/pstA1	(cc=0.489)	info on Rv0930/pstA1
Rv0074/-	(cc=0.4872)	info on Rv0074/-
Rv3885c/eccE2	(cc=0.4799)	info on Rv3885c/eccE2
Rv2430c/PPE41	(cc=0.4793)	info on Rv2430c/PPE41
Rv1505c/-	(cc=0.4729)	info on Rv1505c/-

Correlation of Rv0907/- with Rv0112/gca

Normalized LFCs for Rv0907/-:
(description and provenance of datasets)

	Rv0907/-	Rv0112/gca
Fe_supp_jason_reseq	-0.147	0.415
low_pH_jason_reseq	0.284	1.335
NO_jason_reseq	-0.507	0.171
B6_jason_reseq	-0.417	0.292
MHCII_jason_reseq	0.963	-0.342
Isoniazid02	1.505	0.636
Rifampicin4	-0.601	-0.165
Ethambutol3	1.574	1.454
Meropenem3	0.302	-0.359
Vancomycin16	0.0	0.157
Rv2680_day32	0.476	-0.383
H37Rv_KO_MarP	-0.042	-0.223
hypoxia_3wks	0.096	0.53
hypoxia_6wks	0.472	0.142
glycerol	-0.05	-0.753
cholesterol	0.167	-0.469
AJ	0.413	1.239
Bibs02	-0.339	-0.682
Bibs02c	0.835	0.887
BL6	0.248	0.839
BL6a	0.824	1.663
BXD01	0.583	1.652
BXD010	0.912	1.81
BXD011	1.083	2.088
BXD03	1.105	1.673
BXD04	0.365	0.581
BXD05	0.371	0.747
BXD06	0.533	1.26
BXD07	1.306	1.073
BXD08	0.881	0.987
BXD09	0.44	1.384
CAST	0.055	0.569
CCcont	1.408	0.701
DS01	0.421	0.236
DS02	0.476	0.711
DS04	0.572	0.254
DS0c	0.052	0.815
GP01	0.921	0.067
GP02	0.165	0.109
GP0c	0.407	1.478
NOD	1.076	1.054
NZO	0.588	0.548
PWK	0.429	1.088
H37Rv_KO_CtpC	0.753	0.966
H37Rv_KO_CtpD	0.506	1.023
H37Rv_KO_Rv1272	1.76	1.427
H37Rv_KO_SugABC	1.423	0.976
H37Rv_KO_MbtN	0.709	1.612
Trans05	0.385	2.074
macrophage_unactivated	-0.499	0.139
IL1	-0.151	0.0
Rapamycin	0.436	0.203
Tcell	0.463	0.554
GMCSF	0.375	0.655
IFNab	0.496	-0.429
IFNg	0.257	0.345
IFNg_GMCSF1	0.446	0.779
Rv1432_day32	-0.094	-0.164
Rv1565c_day32	-0.539	0.065
secA2_input	-0.188	-1.342
delta_Rv3594	0.0	0.035
delta_Rv3717	-0.771	0.141
delta_Rv3811	0.0	-0.219
delta_Rv0954	-0.686	-0.726
PonA1	-0.032	0.382
EccD1_KO	0.0	-0.572
EspI_KO	0.0	-1.132
PE35_KO	-0.473	-0.755
PPE68_KO	-0.63	-0.691
glycerol2	-0.241	-0.234
lignocerate	-0.019	-0.374
oleate	-0.55	0.474
phosphatidylcholine	-0.092	-0.056
acetate	0.0	-0.17
glucAc	-0.178	-0.722
Rv0950ko	0.0	0.374
Rv1096ko	0.522	-0.48
Rv3684ko	0.196	-0.599
delta_otsA_trehalose	2.255	2.09