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 Rv2356c/PPE40:

update plot	correlation	link to info on gene
Rv3650/PE33	(cc=0.5562)	info on Rv3650/PE33
Rv3858c/gltD	(cc=0.5221)	info on Rv3858c/gltD
Rv1918c/PPE35	(cc=0.5179)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.4971)	info on Rv2735c/-
Rv2190c/-	(cc=0.4896)	info on Rv2190c/-
Rv3489/-	(cc=0.4793)	info on Rv3489/-
Rv2067c/-	(cc=0.4614)	info on Rv2067c/-
Rv2678c/hemE	(cc=0.4582)	info on Rv2678c/hemE
Rv1507A/-	(cc=0.4471)	info on Rv1507A/-
Rv3425/PPE57	(cc=0.4463)	info on Rv3425/PPE57

Correlation of Rv2356c/PPE40 with Rv1918c/PPE35

Normalized LFCs for Rv2356c/PPE40:
(description and provenance of datasets)

	Rv2356c/PPE40	Rv1918c/PPE35
Fe_supp_jason_reseq	0.65	0.426
low_pH_jason_reseq	0.139	-0.127
NO_jason_reseq	-0.984	-0.326
B6_jason_reseq	-0.202	-0.212
MHCII_jason_reseq	0.447	-0.42
Isoniazid02	-0.036	0.439
Rifampicin4	0.701	0.463
Ethambutol3	0.102	0.449
Meropenem3	-0.138	0.129
Vancomycin16	0.403	0.18
Rv2680_day32	0.677	-0.526
H37Rv_KO_MarP	0.102	-0.339
hypoxia_3wks	-0.471	0.06
hypoxia_6wks	-0.405	-0.031
glycerol	-0.121	-0.671
cholesterol	0.105	0.318
AJ	0.257	0.432
Bibs02	0.147	0.189
Bibs02c	0.456	0.083
BL6	0.519	0.442
BL6a	0.587	0.641
BXD01	-0.225	0.383
BXD010	0.189	0.525
BXD011	0.829	0.747
BXD03	0.435	0.904
BXD04	0.67	0.687
BXD05	0.87	0.8
BXD06	0.547	0.584
BXD07	0.111	0.666
BXD08	-0.177	0.605
BXD09	0.316	0.602
CAST	-0.158	0.21
CCcont	0.049	0.226
DS01	-0.431	0.185
DS02	0.274	0.17
DS04	-0.169	0.128
DS0c	0.107	0.058
GP01	-0.034	0.102
GP02	0.378	0.421
GP0c	-0.477	0.658
NOD	-0.905	0.286
NZO	0.016	0.23
PWK	-0.499	0.153
H37Rv_KO_CtpC	0.105	0.711
H37Rv_KO_CtpD	0.384	1.161
H37Rv_KO_Rv1272	0.847	1.414
H37Rv_KO_SugABC	-0.295	0.711
H37Rv_KO_MbtN	0.957	1.033
Trans05	0.635	1.383
macrophage_unactivated	0.546	0.533
IL1	0.0	0.329
Rapamycin	0.117	0.411
Tcell	-0.293	0.437
GMCSF	0.364	0.354
IFNab	-0.429	0.151
IFNg	0.128	0.166
IFNg_GMCSF1	0.676	0.738
Rv1432_day32	0.018	0.562
Rv1565c_day32	-0.504	-0.227
secA2_input	-1.141	-0.441
delta_Rv3594	0.626	-0.106
delta_Rv3717	-0.292	-0.257
delta_Rv3811	0.544	0.366
delta_Rv0954	0.686	0.014
PonA1	0.329	-0.22
EccD1_KO	-0.816	-0.572
EspI_KO	-0.836	-0.365
PE35_KO	-0.802	-0.44
PPE68_KO	-0.851	-0.518
glycerol2	-0.153	-0.422
lignocerate	-0.056	-0.242
oleate	-0.109	-0.041
phosphatidylcholine	-0.343	-0.21
acetate	0.595	-0.47
glucAc	0.061	-0.123
Rv0950ko	-0.139	-0.488
Rv1096ko	-0.561	-1.001
Rv3684ko	-0.524	-0.347
delta_otsA_trehalose	0.269	-0.684