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 Rv1770/-

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

	Rv0460/-	Rv1770/-
Fe_supp_jason_reseq	0.136	-0.305
low_pH_jason_reseq	-0.765	-0.639
NO_jason_reseq	1.425	-0.129
B6_jason_reseq	-0.772	-0.312
MHCII_jason_reseq	0.379	-0.042
Isoniazid02	0.118	0.346
Rifampicin4	0.856	0.693
Ethambutol3	0.358	0.153
Meropenem3	0.867	-0.35
Vancomycin16	-1.011	0.348
Rv2680_day32	-0.121	-0.366
H37Rv_KO_MarP	1.335	0.185
hypoxia_3wks	0.108	0.124
hypoxia_6wks	0.0	-0.177
glycerol	1.062	1.24
cholesterol	0.321	0.39
AJ	2.649	0.612
Bibs02	0.034	0.211
Bibs02c	-1.399	-0.579
BL6	1.974	0.312
BL6a	-0.326	0.075
BXD01	0.248	0.252
BXD010	2.069	0.19
BXD011	-0.564	0.005
BXD03	-0.522	-0.052
BXD04	0.33	0.108
BXD05	1.098	-0.163
BXD06	0.19	0.258
BXD07	0.448	0.238
BXD08	0.315	0.475
BXD09	0.568	0.152
CAST	-0.649	0.395
CCcont	1.319	0.039
DS01	-0.091	0.0
DS02	0.764	0.025
DS04	0.93	0.382
DS0c	-0.899	-0.207
GP01	3.028	0.902
GP02	1.475	1.576
GP0c	0.785	0.72
NOD	-1.422	0.228
NZO	0.442	-0.465
PWK	0.374	-0.03
H37Rv_KO_CtpC	0.946	0.371
H37Rv_KO_CtpD	2.548	0.414
H37Rv_KO_Rv1272	0.758	0.326
H37Rv_KO_SugABC	-0.949	-1.318
H37Rv_KO_MbtN	0.975	0.441
Trans05	-1.381	0.944
macrophage_unactivated	0.514	0.092
IL1	0.706	0.478
Rapamycin	1.774	0.927
Tcell	1.173	0.287
GMCSF	1.288	0.615
IFNab	2.001	0.384
IFNg	1.804	0.604
IFNg_GMCSF1	1.769	0.459
Rv1432_day32	0.201	0.081
Rv1565c_day32	2.999	0.25
secA2_input	2.453	0.7
delta_Rv3594	-0.451	-0.497
delta_Rv3717	-1.144	-0.39
delta_Rv3811	-2.014	-0.751
delta_Rv0954	-0.908	-0.235
PonA1	-0.467	-1.109
EccD1_KO	-1.848	0.151
EspI_KO	-0.493	0.131
PE35_KO	-1.301	-0.015
PPE68_KO	-0.992	-0.067
glycerol2	0.724	0.738
lignocerate	-0.023	0.475
oleate	-0.109	1.0
phosphatidylcholine	0.14	0.815
acetate	0.166	-0.288
glucAc	0.429	-0.466
Rv0950ko	1.52	0.229
Rv1096ko	0.449	-0.793
Rv3684ko	2.558	-0.337
delta_otsA_trehalose	3.444	1.702