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 Rv1672c/-:

update plot	correlation	link to info on gene
Rv0454/-	(cc=0.4989)	info on Rv0454/-
Rv1215c/-	(cc=0.4562)	info on Rv1215c/-
Rv2333c/stp	(cc=0.4353)	info on Rv2333c/stp
Rv1579c/-	(cc=0.4329)	info on Rv1579c/-
Rv0532/PE_PGRS6	(cc=0.4313)	info on Rv0532/PE_PGRS6
Rv3174/-	(cc=0.4286)	info on Rv3174/-
Rv1105/-	(cc=0.4182)	info on Rv1105/-
Rv1290c/-	(cc=0.418)	info on Rv1290c/-
Rv0078A/-	(cc=0.4078)	info on Rv0078A/-
Rv1482c/-	(cc=0.4058)	info on Rv1482c/-

Correlation of Rv1672c/- with Rv0078A/-

Normalized LFCs for Rv1672c/-:
(description and provenance of datasets)

	Rv1672c/-	Rv0078A/-
Fe_supp_jason_reseq	0.388	-0.272
low_pH_jason_reseq	-0.549	0.296
NO_jason_reseq	0.163	0.37
B6_jason_reseq	-0.295	0.53
MHCII_jason_reseq	-0.09	0.013
Isoniazid02	1.635	1.139
Rifampicin4	-0.089	-0.024
Ethambutol3	2.692	1.885
Meropenem3	0.412	-0.211
Vancomycin16	0.329	-0.467
Rv2680_day32	-0.656	0.045
H37Rv_KO_MarP	-0.425	0.746
hypoxia_3wks	0.861	0.566
hypoxia_6wks	1.746	0.236
glycerol	0.392	0.8
cholesterol	0.017	-0.044
AJ	0.358	-0.518
Bibs02	0.225	-0.784
Bibs02c	-0.209	-0.744
BL6	0.231	-1.067
BL6a	0.092	0.278
BXD01	0.146	0.272
BXD010	0.502	1.097
BXD011	0.0	0.287
BXD03	0.461	0.092
BXD04	0.24	-0.261
BXD05	-0.016	0.408
BXD06	-0.032	0.128
BXD07	0.722	0.243
BXD08	0.205	-0.383
BXD09	0.628	0.361
CAST	-0.055	-0.095
CCcont	0.017	-0.686
DS01	0.137	-0.024
DS02	0.904	-1.805
DS04	0.09	-0.832
DS0c	0.627	-0.834
GP01	0.068	0.405
GP02	0.47	-0.273
GP0c	-0.218	0.025
NOD	-0.345	-0.213
NZO	0.224	-0.371
PWK	0.242	-0.06
H37Rv_KO_CtpC	0.267	-0.119
H37Rv_KO_CtpD	0.443	0.167
H37Rv_KO_Rv1272	-0.178	-0.626
H37Rv_KO_SugABC	-0.208	-1.518
H37Rv_KO_MbtN	0.37	-0.49
Trans05	0.365	0.554
macrophage_unactivated	-0.107	-0.376
IL1	0.033	-0.131
Rapamycin	0.267	0.457
Tcell	0.991	0.443
GMCSF	0.37	0.932
IFNab	-0.139	0.411
IFNg	0.535	0.294
IFNg_GMCSF1	0.207	0.745
Rv1432_day32	2.048	0.81
Rv1565c_day32	0.6	-0.491
secA2_input	-0.257	0.0
delta_Rv3594	0.439	1.023
delta_Rv3717	0.072	0.374
delta_Rv3811	0.596	-0.366
delta_Rv0954	0.127	0.947
PonA1	-0.57	-0.382
EccD1_KO	-0.385	-0.816
EspI_KO	-0.55	-2.039
PE35_KO	0.694	-0.032
PPE68_KO	0.544	0.035
glycerol2	-0.165	-0.46
lignocerate	-0.166	-0.852
oleate	0.176	0.055
phosphatidylcholine	0.067	-0.248
acetate	-0.286	-1.23
glucAc	-0.086	-1.868
Rv0950ko	0.039	-0.597
Rv1096ko	0.157	0.733
Rv3684ko	0.128	0.334
delta_otsA_trehalose	-0.96	-0.342