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 Rv2679/echA15

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

	Rv0460/-	Rv2679/echA15
Fe_supp_jason_reseq	0.136	-0.857
low_pH_jason_reseq	-0.765	-1.198
NO_jason_reseq	1.425	1.142
B6_jason_reseq	-0.772	-0.225
MHCII_jason_reseq	0.379	0.652
Isoniazid02	0.118	-2.239
Rifampicin4	0.856	0.214
Ethambutol3	0.358	-1.268
Meropenem3	0.867	-1.438
Vancomycin16	-1.011	-0.873
Rv2680_day32	-0.121	0.16
H37Rv_KO_MarP	1.335	0.085
hypoxia_3wks	0.108	-0.319
hypoxia_6wks	0.0	-0.66
glycerol	1.062	0.48
cholesterol	0.321	0.102
AJ	2.649	0.388
Bibs02	0.034	-0.71
Bibs02c	-1.399	0.1
BL6	1.974	0.269
BL6a	-0.326	-0.696
BXD01	0.248	0.183
BXD010	2.069	-0.586
BXD011	-0.564	0.013
BXD03	-0.522	-0.669
BXD04	0.33	-0.318
BXD05	1.098	-0.124
BXD06	0.19	-0.331
BXD07	0.448	0.032
BXD08	0.315	0.514
BXD09	0.568	-0.61
CAST	-0.649	-0.445
CCcont	1.319	0.019
DS01	-0.091	-0.12
DS02	0.764	-0.347
DS04	0.93	0.201
DS0c	-0.899	-0.925
GP01	3.028	0.265
GP02	1.475	1.004
GP0c	0.785	0.0
NOD	-1.422	0.41
NZO	0.442	0.202
PWK	0.374	0.32
H37Rv_KO_CtpC	0.946	0.118
H37Rv_KO_CtpD	2.548	1.037
H37Rv_KO_Rv1272	0.758	-0.179
H37Rv_KO_SugABC	-0.949	-0.594
H37Rv_KO_MbtN	0.975	0.237
Trans05	-1.381	-0.359
macrophage_unactivated	0.514	-0.994
IL1	0.706	0.329
Rapamycin	1.774	0.377
Tcell	1.173	-0.267
GMCSF	1.288	0.692
IFNab	2.001	0.054
IFNg	1.804	-0.168
IFNg_GMCSF1	1.769	0.258
Rv1432_day32	0.201	0.096
Rv1565c_day32	2.999	-0.321
secA2_input	2.453	0.603
delta_Rv3594	-0.451	-0.387
delta_Rv3717	-1.144	0.248
delta_Rv3811	-2.014	-1.472
delta_Rv0954	-0.908	-0.076
PonA1	-0.467	-0.062
EccD1_KO	-1.848	-0.454
EspI_KO	-0.493	0.157
PE35_KO	-1.301	-0.362
PPE68_KO	-0.992	0.118
glycerol2	0.724	0.387
lignocerate	-0.023	0.716
oleate	-0.109	0.795
phosphatidylcholine	0.14	0.794
acetate	0.166	0.073
glucAc	0.429	0.036
Rv0950ko	1.52	0.627
Rv1096ko	0.449	0.609
Rv3684ko	2.558	0.544
delta_otsA_trehalose	3.444	1.186