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 Rv0460/-:

update plot	correlation	link to info on gene
Rv1770/-	(cc=0.4837)	info on Rv1770/-
Rv0358/-	(cc=0.4363)	info on Rv0358/-
Rv0912/-	(cc=0.4316)	info on Rv0912/-
Rv2829c/vapC22	(cc=0.4269)	info on Rv2829c/vapC22
Rv3886c/mycP2	(cc=0.425)	info on Rv3886c/mycP2
Rv2679/echA15	(cc=0.4204)	info on Rv2679/echA15
Rv3032A/-	(cc=0.405)	info on Rv3032A/-
Rv1219c/-	(cc=0.4014)	info on Rv1219c/-
Rv1664/pks9	(cc=0.3981)	info on Rv1664/pks9
Rv0077c/-	(cc=0.3975)	info on Rv0077c/-

Correlation of Rv0460/- with Rv0077c/-

Normalized LFCs for Rv0460/-:
(description and provenance of datasets)

	Rv0460/-	Rv0077c/-
Fe_supp_jason_reseq	0.136	-0.221
low_pH_jason_reseq	-0.765	-0.381
NO_jason_reseq	1.425	0.029
B6_jason_reseq	-0.772	0.538
MHCII_jason_reseq	0.379	0.238
Isoniazid02	0.118	0.444
Rifampicin4	0.856	0.165
Ethambutol3	0.358	0.555
Meropenem3	0.867	0.528
Vancomycin16	-1.011	0.239
Rv2680_day32	-0.121	-1.331
H37Rv_KO_MarP	1.335	0.349
hypoxia_3wks	0.108	0.546
hypoxia_6wks	0.0	0.37
glycerol	1.062	0.098
cholesterol	0.321	-0.208
AJ	2.649	0.555
Bibs02	0.034	1.245
Bibs02c	-1.399	-0.045
BL6	1.974	-0.449
BL6a	-0.326	0.274
BXD01	0.248	-0.404
BXD010	2.069	0.349
BXD011	-0.564	0.035
BXD03	-0.522	0.338
BXD04	0.33	0.068
BXD05	1.098	0.639
BXD06	0.19	0.225
BXD07	0.448	0.315
BXD08	0.315	-0.058
BXD09	0.568	0.805
CAST	-0.649	0.375
CCcont	1.319	-0.551
DS01	-0.091	0.681
DS02	0.764	0.148
DS04	0.93	0.804
DS0c	-0.899	0.03
GP01	3.028	1.734
GP02	1.475	0.194
GP0c	0.785	0.235
NOD	-1.422	-0.216
NZO	0.442	0.373
PWK	0.374	0.26
H37Rv_KO_CtpC	0.946	-1.045
H37Rv_KO_CtpD	2.548	-0.704
H37Rv_KO_Rv1272	0.758	-0.411
H37Rv_KO_SugABC	-0.949	-0.952
H37Rv_KO_MbtN	0.975	-0.973
Trans05	-1.381	-0.057
macrophage_unactivated	0.514	-0.12
IL1	0.706	0.303
Rapamycin	1.774	0.046
Tcell	1.173	0.049
GMCSF	1.288	0.573
IFNab	2.001	0.308
IFNg	1.804	0.596
IFNg_GMCSF1	1.769	0.0
Rv1432_day32	0.201	-0.478
Rv1565c_day32	2.999	-0.066
secA2_input	2.453	1.403
delta_Rv3594	-0.451	-1.007
delta_Rv3717	-1.144	-0.868
delta_Rv3811	-2.014	-1.152
delta_Rv0954	-0.908	0.523
PonA1	-0.467	0.347
EccD1_KO	-1.848	0.059
EspI_KO	-0.493	-0.813
PE35_KO	-1.301	-0.426
PPE68_KO	-0.992	-0.499
glycerol2	0.724	-0.289
lignocerate	-0.023	-0.399
oleate	-0.109	-0.425
phosphatidylcholine	0.14	-0.459
acetate	0.166	-0.195
glucAc	0.429	-0.777
Rv0950ko	1.52	0.633
Rv1096ko	0.449	1.327
Rv3684ko	2.558	1.225
delta_otsA_trehalose	3.444	1.344