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 Rv1550/fadD11

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

	Rv3224/-	Rv1550/fadD11
Fe_supp_jason_reseq	-0.543	0.226
low_pH_jason_reseq	-0.482	0.239
NO_jason_reseq	-0.402	0.36
B6_jason_reseq	0.656	0.209
MHCII_jason_reseq	0.222	0.296
Isoniazid02	0.365	0.549
Rifampicin4	-0.116	0.582
Ethambutol3	1.892	1.583
Meropenem3	0.788	1.961
Vancomycin16	0.048	0.493
Rv2680_day32	0.111	0.6
H37Rv_KO_MarP	-0.175	0.128
hypoxia_3wks	0.183	-0.156
hypoxia_6wks	0.426	0.094
glycerol	-0.933	0.328
cholesterol	-0.451	0.036
AJ	-0.145	0.029
Bibs02	-0.253	0.246
Bibs02c	0.177	0.47
BL6	0.468	0.898
BL6a	0.26	0.716
BXD01	0.571	1.373
BXD010	0.657	0.546
BXD011	0.51	0.845
BXD03	0.196	0.699
BXD04	0.529	0.516
BXD05	0.464	0.66
BXD06	0.582	0.881
BXD07	0.655	0.537
BXD08	0.661	0.909
BXD09	0.443	1.009
CAST	0.409	0.22
CCcont	-0.314	0.559
DS01	0.08	0.318
DS02	0.438	0.257
DS04	0.194	1.012
DS0c	-0.357	0.292
GP01	1.121	0.638
GP02	0.168	0.483
GP0c	0.217	-0.041
NOD	0.132	-0.042
NZO	0.051	0.11
PWK	-0.202	0.199
H37Rv_KO_CtpC	0.261	0.365
H37Rv_KO_CtpD	0.824	0.48
H37Rv_KO_Rv1272	0.231	1.287
H37Rv_KO_SugABC	0.992	0.996
H37Rv_KO_MbtN	0.594	1.027
Trans05	0.5	1.562
macrophage_unactivated	-0.496	-0.044
IL1	-0.205	-0.062
Rapamycin	-0.402	0.0
Tcell	-0.134	1.092
GMCSF	-0.193	-0.697
IFNab	-0.124	-0.825
IFNg	-0.679	-0.174
IFNg_GMCSF1	-0.399	0.283
Rv1432_day32	0.679	1.335
Rv1565c_day32	-0.259	-0.177
secA2_input	-0.091	0.075
delta_Rv3594	0.239	0.493
delta_Rv3717	0.539	1.419
delta_Rv3811	0.571	0.821
delta_Rv0954	-0.443	-0.477
PonA1	-0.11	-0.2
EccD1_KO	-0.02	-0.737
EspI_KO	0.588	-0.707
PE35_KO	0.277	0.02
PPE68_KO	0.378	-0.067
glycerol2	0.199	0.89
lignocerate	0.33	1.335
oleate	0.617	0.017
phosphatidylcholine	0.192	1.183
acetate	-0.043	0.992
glucAc	-0.299	0.854
Rv0950ko	-0.145	-0.651
Rv1096ko	-0.13	-0.609
Rv3684ko	0.272	-0.429
delta_otsA_trehalose	0.139	-0.803