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 Rv3637/-

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

	Rv2578c/-	Rv3637/-
Fe_supp_jason_reseq	-0.804	0.088
low_pH_jason_reseq	0.843	0.306
NO_jason_reseq	0.473	-0.249
B6_jason_reseq	-0.467	0.29
MHCII_jason_reseq	0.441	1.016
Isoniazid02	-0.228	-0.08
Rifampicin4	-0.038	0.349
Ethambutol3	0.0	-0.404
Meropenem3	-0.338	-0.242
Vancomycin16	0.21	0.241
Rv2680_day32	0.382	0.669
H37Rv_KO_MarP	0.281	0.179
hypoxia_3wks	0.116	0.494
hypoxia_6wks	-0.092	-1.077
glycerol	0.05	-0.408
cholesterol	-0.193	-0.293
AJ	-0.165	-0.034
Bibs02	-0.257	-0.327
Bibs02c	-0.164	-0.602
BL6	-0.443	-1.742
BL6a	-0.702	-0.854
BXD01	-1.127	-1.318
BXD010	-0.713	-1.509
BXD011	-0.63	-1.391
BXD03	-0.577	0.155
BXD04	-0.612	-2.056
BXD05	-0.901	-0.551
BXD06	-0.91	-1.572
BXD07	-0.578	-1.367
BXD08	-0.381	-1.627
BXD09	-0.668	-1.222
CAST	0.14	-0.894
CCcont	-1.072	-1.898
DS01	-0.152	0.623
DS02	-0.126	0.249
DS04	0.874	1.989
DS0c	-0.055	-0.999
GP01	-0.275	-0.837
GP02	-0.245	-1.558
GP0c	-0.825	-2.325
NOD	-0.465	-1.228
NZO	0.526	1.205
PWK	0.307	-0.577
H37Rv_KO_CtpC	-0.708	-3.09
H37Rv_KO_CtpD	0.679	0.435
H37Rv_KO_Rv1272	0.317	-0.749
H37Rv_KO_SugABC	-1.454	-1.826
H37Rv_KO_MbtN	0.128	-0.679
Trans05	-0.374	-1.772
macrophage_unactivated	-1.881	-3.112
IL1	-0.033	-1.16
Rapamycin	0.034	-0.816
Tcell	-1.004	-1.036
GMCSF	0.52	-2.529
IFNab	-0.423	-0.701
IFNg	-0.714	-2.635
IFNg_GMCSF1	-0.289	0.346
Rv1432_day32	0.141	0.107
Rv1565c_day32	-0.362	-0.033
secA2_input	0.564	1.368
delta_Rv3594	0.139	0.289
delta_Rv3717	-0.711	-1.222
delta_Rv3811	-1.025	-0.452
delta_Rv0954	-0.125	0.654
PonA1	-0.723	-0.547
EccD1_KO	0.398	-0.194
EspI_KO	0.918	0.704
PE35_KO	-0.271	-1.421
PPE68_KO	0.442	-1.107
glycerol2	-0.622	-1.083
lignocerate	-0.723	-1.308
oleate	-0.5	-1.096
phosphatidylcholine	-0.59	-1.462
acetate	-0.088	-1.052
glucAc	-0.172	-1.367
Rv0950ko	0.103	-0.1
Rv1096ko	0.051	-0.558
Rv3684ko	0.056	-1.791
delta_otsA_trehalose	0.472	0.852