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 Rv3755c/-:

update plot	correlation	link to info on gene
Rv1112/-	(cc=0.5657)	info on Rv1112/-
Rv1079/metB	(cc=0.5299)	info on Rv1079/metB
Rv3624c/hpt	(cc=0.4788)	info on Rv3624c/hpt
Rv1638/uvrA	(cc=0.4773)	info on Rv1638/uvrA
Rv0155/pntAa	(cc=0.4747)	info on Rv0155/pntAa
Rv3433c/-	(cc=0.472)	info on Rv3433c/-
Rv2222c/glnA2	(cc=0.462)	info on Rv2222c/glnA2
Rv2929/-	(cc=0.448)	info on Rv2929/-
Rv1173/fbiC	(cc=0.4458)	info on Rv1173/fbiC
Rv1196/PPE18	(cc=0.4431)	info on Rv1196/PPE18

Correlation of Rv3755c/- with Rv1196/PPE18

Normalized LFCs for Rv3755c/-:
(description and provenance of datasets)

	Rv3755c/-	Rv1196/PPE18
Fe_supp_jason_reseq	0.706	-0.06
low_pH_jason_reseq	-0.979	-1.091
NO_jason_reseq	-0.969	-0.914
B6_jason_reseq	-2.07	-1.217
MHCII_jason_reseq	-2.8	0.228
Isoniazid02	3.111	2.462
Rifampicin4	-0.344	0.842
Ethambutol3	0.705	1.445
Meropenem3	1.452	-0.121
Vancomycin16	0.382	0.531
Rv2680_day32	-1.501	-1.276
H37Rv_KO_MarP	1.008	-0.934
hypoxia_3wks	-1.232	0.626
hypoxia_6wks	-1.029	0.875
glycerol	-0.471	0.828
cholesterol	1.302	0.379
AJ	0.129	1.657
Bibs02	-0.034	0.685
Bibs02c	0.0	1.155
BL6	-0.384	1.282
BL6a	0.558	1.591
BXD01	0.347	0.97
BXD010	0.999	0.644
BXD011	-0.424	1.367
BXD03	1.706	1.557
BXD04	1.988	0.999
BXD05	-0.052	1.494
BXD06	1.243	0.919
BXD07	0.22	0.923
BXD08	0.775	1.004
BXD09	0.312	1.004
CAST	-0.23	0.863
CCcont	1.48	1.275
DS01	0.45	1.246
DS02	0.159	0.892
DS04	0.275	1.684
DS0c	1.53	1.171
GP01	-1.412	0.765
GP02	-1.324	0.418
GP0c	-1.245	0.506
NOD	-0.042	0.133
NZO	-0.419	0.761
PWK	1.142	0.999
H37Rv_KO_CtpC	0.946	-0.175
H37Rv_KO_CtpD	1.742	1.298
H37Rv_KO_Rv1272	0.896	1.113
H37Rv_KO_SugABC	0.736	1.499
H37Rv_KO_MbtN	0.518	1.065
Trans05	-0.025	0.993
macrophage_unactivated	0.587	0.246
IL1	-2.367	-1.16
Rapamycin	-0.853	-0.35
Tcell	0.857	-1.0
GMCSF	0.048	-0.742
IFNab	-0.112	1.62
IFNg	-1.89	-1.868
IFNg_GMCSF1	-1.458	-0.308
Rv1432_day32	-1.254	-0.271
Rv1565c_day32	-1.842	-0.101
secA2_input	-1.313	-0.312
delta_Rv3594	0.387	0.569
delta_Rv3717	0.346	0.865
delta_Rv3811	-0.109	0.758
delta_Rv0954	0.903	0.339
PonA1	-0.329	-0.369
EccD1_KO	0.572	0.122
EspI_KO	-0.057	1.32
PE35_KO	0.131	0.72
PPE68_KO	-0.064	0.157
glycerol2	-1.46	1.103
lignocerate	-1.578	0.742
oleate	-0.903	-0.425
phosphatidylcholine	-1.55	1.064
acetate	-0.214	-0.045
glucAc	-0.168	0.176
Rv0950ko	0.549	-0.057
Rv1096ko	-0.362	-0.03
Rv3684ko	0.786	-0.226
delta_otsA_trehalose	-0.952	1.263