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 Rv2578c/-:

update plot	correlation	link to info on gene
Rv3637/-	(cc=0.6252)	info on Rv3637/-
Rv1180/pks3	(cc=0.5142)	info on Rv1180/pks3
Rv0623/vapB30	(cc=0.5114)	info on Rv0623/vapB30
Rv2615c/PE_PGRS45	(cc=0.4987)	info on Rv2615c/PE_PGRS45
Rv2631/-	(cc=0.472)	info on Rv2631/-
Rv1843c/guaB1	(cc=0.4622)	info on Rv1843c/guaB1
Rv0139/-	(cc=0.4576)	info on Rv0139/-
Rv2741/PE_PGRS47	(cc=0.4569)	info on Rv2741/PE_PGRS47
Rv3471c/-	(cc=0.4555)	info on Rv3471c/-
Rv2032/acg	(cc=0.449)	info on Rv2032/acg

Correlation of Rv2578c/- with Rv0139/-

Normalized LFCs for Rv2578c/-:
(description and provenance of datasets)

	Rv2578c/-	Rv0139/-
Fe_supp_jason_reseq	-0.804	-0.447
low_pH_jason_reseq	0.843	0.032
NO_jason_reseq	0.473	0.21
B6_jason_reseq	-0.467	0.667
MHCII_jason_reseq	0.441	0.715
Isoniazid02	-0.228	0.045
Rifampicin4	-0.038	-0.536
Ethambutol3	0.0	2.085
Meropenem3	-0.338	0.017
Vancomycin16	0.21	-0.172
Rv2680_day32	0.382	1.71
H37Rv_KO_MarP	0.281	0.186
hypoxia_3wks	0.116	0.048
hypoxia_6wks	-0.092	-0.111
glycerol	0.05	0.26
cholesterol	-0.193	0.07
AJ	-0.165	0.108
Bibs02	-0.257	-0.195
Bibs02c	-0.164	0.418
BL6	-0.443	-0.668
BL6a	-0.702	-0.296
BXD01	-1.127	-0.691
BXD010	-0.713	-0.799
BXD011	-0.63	-0.864
BXD03	-0.577	-0.533
BXD04	-0.612	-0.374
BXD05	-0.901	-0.818
BXD06	-0.91	-0.588
BXD07	-0.578	-0.797
BXD08	-0.381	-0.073
BXD09	-0.668	-1.175
CAST	0.14	0.305
CCcont	-1.072	-1.12
DS01	-0.152	-0.021
DS02	-0.126	-0.348
DS04	0.874	0.021
DS0c	-0.055	0.528
GP01	-0.275	0.27
GP02	-0.245	-0.118
GP0c	-0.825	-0.278
NOD	-0.465	-0.098
NZO	0.526	0.253
PWK	0.307	0.209
H37Rv_KO_CtpC	-0.708	-0.715
H37Rv_KO_CtpD	0.679	0.468
H37Rv_KO_Rv1272	0.317	-0.779
H37Rv_KO_SugABC	-1.454	-1.098
H37Rv_KO_MbtN	0.128	-0.293
Trans05	-0.374	-0.469
macrophage_unactivated	-1.881	-0.836
IL1	-0.033	-0.581
Rapamycin	0.034	-0.414
Tcell	-1.004	-0.74
GMCSF	0.52	-0.158
IFNab	-0.423	-0.148
IFNg	-0.714	-0.16
IFNg_GMCSF1	-0.289	-0.352
Rv1432_day32	0.141	-0.533
Rv1565c_day32	-0.362	-0.058
secA2_input	0.564	0.125
delta_Rv3594	0.139	0.517
delta_Rv3717	-0.711	0.487
delta_Rv3811	-1.025	0.333
delta_Rv0954	-0.125	0.689
PonA1	-0.723	0.085
EccD1_KO	0.398	0.451
EspI_KO	0.918	-0.134
PE35_KO	-0.271	-0.545
PPE68_KO	0.442	-0.275
glycerol2	-0.622	0.224
lignocerate	-0.723	-0.162
oleate	-0.5	0.271
phosphatidylcholine	-0.59	-0.253
acetate	-0.088	-0.672
glucAc	-0.172	-0.609
Rv0950ko	0.103	-0.072
Rv1096ko	0.051	0.0
Rv3684ko	0.056	0.282
delta_otsA_trehalose	0.472	0.065