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 Rv3224/-:

update plot	correlation	link to info on gene
Rv0454/-	(cc=0.5311)	info on Rv0454/-
Rv0644c/mmaA2	(cc=0.528)	info on Rv0644c/mmaA2
Rv0048c/-	(cc=0.5093)	info on Rv0048c/-
Rv3158/nuoN	(cc=0.5076)	info on Rv3158/nuoN
Rv3429/PPE59	(cc=0.5051)	info on Rv3429/PPE59
Rv1520/-	(cc=0.4988)	info on Rv1520/-
Rv2107/PE22	(cc=0.4955)	info on Rv2107/PE22
Rv3842c/glpQ1	(cc=0.4854)	info on Rv3842c/glpQ1
Rv1866/-	(cc=0.4848)	info on Rv1866/-
Rv1550/fadD11	(cc=0.4841)	info on Rv1550/fadD11

Correlation of Rv3224/- with Rv1520/-

Normalized LFCs for Rv3224/-:
(description and provenance of datasets)

	Rv3224/-	Rv1520/-
Fe_supp_jason_reseq	-0.543	0.079
low_pH_jason_reseq	-0.482	0.231
NO_jason_reseq	-0.402	-0.307
B6_jason_reseq	0.656	0.13
MHCII_jason_reseq	0.222	-0.09
Isoniazid02	0.365	0.29
Rifampicin4	-0.116	0.319
Ethambutol3	1.892	1.002
Meropenem3	0.788	1.412
Vancomycin16	0.048	0.146
Rv2680_day32	0.111	0.446
H37Rv_KO_MarP	-0.175	-0.244
hypoxia_3wks	0.183	0.375
hypoxia_6wks	0.426	0.127
glycerol	-0.933	-0.886
cholesterol	-0.451	-0.508
AJ	-0.145	0.128
Bibs02	-0.253	0.177
Bibs02c	0.177	1.026
BL6	0.468	0.248
BL6a	0.26	0.649
BXD01	0.571	0.242
BXD010	0.657	0.409
BXD011	0.51	0.349
BXD03	0.196	0.256
BXD04	0.529	0.554
BXD05	0.464	0.276
BXD06	0.582	0.231
BXD07	0.655	0.173
BXD08	0.661	0.321
BXD09	0.443	0.385
CAST	0.409	0.24
CCcont	-0.314	0.039
DS01	0.08	0.087
DS02	0.438	0.143
DS04	0.194	-0.128
DS0c	-0.357	0.016
GP01	1.121	0.444
GP02	0.168	-0.209
GP0c	0.217	0.153
NOD	0.132	0.522
NZO	0.051	0.314
PWK	-0.202	0.072
H37Rv_KO_CtpC	0.261	0.266
H37Rv_KO_CtpD	0.824	-0.179
H37Rv_KO_Rv1272	0.231	0.682
H37Rv_KO_SugABC	0.992	0.802
H37Rv_KO_MbtN	0.594	0.315
Trans05	0.5	0.358
macrophage_unactivated	-0.496	0.073
IL1	-0.205	-0.255
Rapamycin	-0.402	0.301
Tcell	-0.134	0.375
GMCSF	-0.193	-0.333
IFNab	-0.124	0.163
IFNg	-0.679	-0.075
IFNg_GMCSF1	-0.399	0.101
Rv1432_day32	0.679	-0.365
Rv1565c_day32	-0.259	0.174
secA2_input	-0.091	-0.643
delta_Rv3594	0.239	0.064
delta_Rv3717	0.539	-0.434
delta_Rv3811	0.571	-0.007
delta_Rv0954	-0.443	-0.24
PonA1	-0.11	0.106
EccD1_KO	-0.02	0.293
EspI_KO	0.588	0.143
PE35_KO	0.277	0.26
PPE68_KO	0.378	0.39
glycerol2	0.199	0.175
lignocerate	0.33	0.191
oleate	0.617	-0.02
phosphatidylcholine	0.192	0.134
acetate	-0.043	-0.344
glucAc	-0.299	0.055
Rv0950ko	-0.145	0.051
Rv1096ko	-0.13	-0.383
Rv3684ko	0.272	-0.085
delta_otsA_trehalose	0.139	0.364