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 Rv1059/-:

update plot	correlation	link to info on gene
Rv2430c/PPE41	(cc=0.7583)	info on Rv2430c/PPE41
Rv1504c/-	(cc=0.7351)	info on Rv1504c/-
Rv3152/nuoH	(cc=0.7303)	info on Rv3152/nuoH
Rv2735c/-	(cc=0.723)	info on Rv2735c/-
Rv0403c/mmpS1	(cc=0.6955)	info on Rv0403c/mmpS1
Rv3150/nuoF	(cc=0.6944)	info on Rv3150/nuoF
Rv1918c/PPE35	(cc=0.6928)	info on Rv1918c/PPE35
Rv3116/moeB2	(cc=0.6862)	info on Rv3116/moeB2
Rv1500/-	(cc=0.68)	info on Rv1500/-
Rv3148/nuoD	(cc=0.6791)	info on Rv3148/nuoD

Correlation of Rv1059/- with Rv0403c/mmpS1

Normalized LFCs for Rv1059/-:
(description and provenance of datasets)

	Rv1059/-	Rv0403c/mmpS1
Fe_supp_jason_reseq	0.182	0.043
low_pH_jason_reseq	0.371	-0.535
NO_jason_reseq	0.302	0.344
B6_jason_reseq	-1.402	-2.182
MHCII_jason_reseq	-1.842	-0.931
Isoniazid02	-0.509	-0.153
Rifampicin4	-0.582	0.122
Ethambutol3	-0.685	-0.152
Meropenem3	0.94	-0.15
Vancomycin16	-0.639	0.305
Rv2680_day32	-2.147	-0.918
H37Rv_KO_MarP	0.178	0.079
hypoxia_3wks	0.642	0.905
hypoxia_6wks	0.639	-0.198
glycerol	-1.121	-2.319
cholesterol	-0.294	-0.398
AJ	-0.65	-0.079
Bibs02	1.021	0.854
Bibs02c	-0.587	0.136
BL6	1.992	-0.141
BL6a	2.468	0.722
BXD01	2.452	0.757
BXD010	2.106	0.411
BXD011	2.436	0.87
BXD03	3.572	1.436
BXD04	2.353	0.891
BXD05	2.247	0.582
BXD06	2.654	0.821
BXD07	2.607	0.524
BXD08	2.531	0.862
BXD09	2.688	0.778
CAST	1.023	0.15
CCcont	2.164	-0.285
DS01	0.522	0.325
DS02	0.369	0.337
DS04	0.225	1.098
DS0c	2.858	0.482
GP01	1.636	0.647
GP02	1.944	1.58
GP0c	0.981	0.391
NOD	0.133	-0.187
NZO	-1.107	0.529
PWK	0.433	0.415
H37Rv_KO_CtpC	2.426	0.807
H37Rv_KO_CtpD	2.855	0.656
H37Rv_KO_Rv1272	1.834	0.592
H37Rv_KO_SugABC	2.796	0.938
H37Rv_KO_MbtN	0.611	-0.329
Trans05	3.009	1.176
macrophage_unactivated	2.197	0.335
IL1	0.635	-0.543
Rapamycin	-0.043	-0.908
Tcell	0.046	0.283
GMCSF	0.327	-0.544
IFNab	-0.178	-0.723
IFNg	-0.238	-0.187
IFNg_GMCSF1	-0.377	-1.496
Rv1432_day32	-1.635	-0.089
Rv1565c_day32	-0.218	-0.344
secA2_input	-2.481	-1.406
delta_Rv3594	0.872	-0.17
delta_Rv3717	-0.365	-0.278
delta_Rv3811	1.246	-0.109
delta_Rv0954	0.952	0.654
PonA1	0.0	0.494
EccD1_KO	-0.069	-0.783
EspI_KO	0.394	0.602
PE35_KO	-1.768	-0.309
PPE68_KO	-0.56	-0.166
glycerol2	-0.37	0.161
lignocerate	-0.856	-0.567
oleate	0.272	0.457
phosphatidylcholine	-0.204	0.245
acetate	-0.871	-1.2
glucAc	-1.382	-1.626
Rv0950ko	-1.393	0.163
Rv1096ko	-1.915	-0.971
Rv3684ko	-1.883	-0.278
delta_otsA_trehalose	-0.675	-0.474