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 Rv2896c/-:

update plot	correlation	link to info on gene
Rv1961/-	(cc=0.4625)	info on Rv1961/-
Rv0976c/-	(cc=0.4607)	info on Rv0976c/-
Rv2159c/-	(cc=0.4461)	info on Rv2159c/-
Rv3292/-	(cc=0.446)	info on Rv3292/-
Rv2012/-	(cc=0.426)	info on Rv2012/-
Rv0897c/-	(cc=0.4057)	info on Rv0897c/-
Rv0992c/-	(cc=0.404)	info on Rv0992c/-
Rv0994/moeA1	(cc=0.4033)	info on Rv0994/moeA1
Rv1452c/PE_PGRS28	(cc=0.3929)	info on Rv1452c/PE_PGRS28
Rv0222/echA1	(cc=0.3881)	info on Rv0222/echA1

Correlation of Rv2896c/- with Rv1452c/PE_PGRS28

Normalized LFCs for Rv2896c/-:
(description and provenance of datasets)

	Rv2896c/-	Rv1452c/PE_PGRS28
Fe_supp_jason_reseq	-0.685	-0.046
low_pH_jason_reseq	-0.932	-0.765
NO_jason_reseq	0.263	-0.396
B6_jason_reseq	-0.482	-0.24
MHCII_jason_reseq	-0.754	0.75
Isoniazid02	0.764	1.064
Rifampicin4	-0.181	0.636
Ethambutol3	0.188	0.911
Meropenem3	0.114	1.12
Vancomycin16	0.058	0.027
Rv2680_day32	-0.456	-0.669
H37Rv_KO_MarP	-0.051	-0.555
hypoxia_3wks	-0.287	0.0
hypoxia_6wks	-0.624	-0.411
glycerol	1.546	1.849
cholesterol	0.503	0.649
AJ	-0.128	1.04
Bibs02	0.654	1.558
Bibs02c	-0.115	1.122
BL6	0.637	0.057
BL6a	0.103	0.462
BXD01	-0.299	0.149
BXD010	-0.223	-0.125
BXD011	-0.269	0.306
BXD03	-0.562	0.132
BXD04	0.256	0.1
BXD05	0.261	0.667
BXD06	-0.173	-0.187
BXD07	0.082	0.323
BXD08	0.117	0.34
BXD09	-0.182	0.039
CAST	-0.108	0.719
CCcont	-0.035	-0.325
DS01	0.674	0.31
DS02	0.767	0.474
DS04	0.706	1.313
DS0c	0.607	-0.041
GP01	0.022	0.825
GP02	0.98	1.219
GP0c	0.465	1.25
NOD	0.792	1.396
NZO	-0.078	0.595
PWK	-0.413	0.192
H37Rv_KO_CtpC	0.386	0.993
H37Rv_KO_CtpD	0.78	1.665
H37Rv_KO_Rv1272	-0.435	-0.095
H37Rv_KO_SugABC	-1.474	0.531
H37Rv_KO_MbtN	0.529	0.843
Trans05	-0.377	0.095
macrophage_unactivated	0.18	-0.028
IL1	0.516	0.05
Rapamycin	0.206	-0.276
Tcell	-0.329	-0.74
GMCSF	-0.351	0.734
IFNab	-0.121	-0.656
IFNg	0.489	-0.048
IFNg_GMCSF1	0.179	-0.057
Rv1432_day32	0.738	0.754
Rv1565c_day32	0.491	-0.635
secA2_input	0.435	-0.653
delta_Rv3594	-0.286	-0.217
delta_Rv3717	0.083	0.477
delta_Rv3811	0.0	-0.125
delta_Rv0954	-0.261	-0.667
PonA1	-0.485	-0.299
EccD1_KO	-0.145	0.724
EspI_KO	-0.083	-0.345
PE35_KO	0.545	0.079
PPE68_KO	0.518	-0.202
glycerol2	-0.303	-0.581
lignocerate	0.558	-0.567
oleate	-0.072	-0.345
phosphatidylcholine	0.31	-0.164
acetate	0.472	-0.982
glucAc	0.304	0.026
Rv0950ko	0.172	0.042
Rv1096ko	0.829	0.223
Rv3684ko	0.576	-0.255
delta_otsA_trehalose	-0.416	-1.019