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 Rv3188/-:

update plot	correlation	link to info on gene
Rv0691c/-	(cc=0.4375)	info on Rv0691c/-
Rv2800/-	(cc=0.4268)	info on Rv2800/-
Rv2310/-	(cc=0.424)	info on Rv2310/-
Rv0892/-	(cc=0.4136)	info on Rv0892/-
Rv1566c/-	(cc=0.4062)	info on Rv1566c/-
Rv2938/drrC	(cc=0.3902)	info on Rv2938/drrC
Rv2306B/-	(cc=0.3876)	info on Rv2306B/-
Rv1585c/-	(cc=0.384)	info on Rv1585c/-
Rv0798c/cfp29	(cc=0.3831)	info on Rv0798c/cfp29
Rv2957/-	(cc=0.3756)	info on Rv2957/-

Correlation of Rv3188/- with Rv2957/-

Normalized LFCs for Rv3188/-:
(description and provenance of datasets)

	Rv3188/-	Rv2957/-
Fe_supp_jason_reseq	0.395	0.507
low_pH_jason_reseq	0.611	-0.46
NO_jason_reseq	-0.139	-0.018
B6_jason_reseq	0.151	0.052
MHCII_jason_reseq	1.439	0.319
Isoniazid02	-0.134	-0.784
Rifampicin4	-0.677	0.417
Ethambutol3	-0.016	0.316
Meropenem3	-0.031	-0.769
Vancomycin16	-0.393	-0.17
Rv2680_day32	-0.21	0.675
H37Rv_KO_MarP	0.12	0.492
hypoxia_3wks	0.223	-0.12
hypoxia_6wks	-0.184	-0.236
glycerol	-0.518	-0.018
cholesterol	0.268	-0.17
AJ	0.38	0.171
Bibs02	-0.837	-0.04
Bibs02c	1.088	0.399
BL6	0.917	0.256
BL6a	0.915	0.131
BXD01	0.476	0.434
BXD010	0.255	0.519
BXD011	0.443	0.322
BXD03	0.683	0.536
BXD04	1.355	0.994
BXD05	-0.33	0.11
BXD06	0.862	0.465
BXD07	0.246	0.422
BXD08	-0.415	0.268
BXD09	0.023	0.49
CAST	-0.47	0.347
CCcont	0.93	0.191
DS01	1.324	-0.123
DS02	0.945	0.221
DS04	0.687	-0.228
DS0c	0.52	0.358
GP01	-0.427	0.782
GP02	-1.837	0.576
GP0c	-0.033	0.039
NOD	2.211	0.692
NZO	-2.208	-0.402
PWK	-0.924	0.395
H37Rv_KO_CtpC	0.515	0.936
H37Rv_KO_CtpD	1.259	0.909
H37Rv_KO_Rv1272	-0.288	1.143
H37Rv_KO_SugABC	0.608	0.842
H37Rv_KO_MbtN	0.87	0.76
Trans05	0.59	1.468
macrophage_unactivated	2.058	0.615
IL1	0.332	-0.329
Rapamycin	0.055	-0.307
Tcell	-0.27	-0.476
GMCSF	-0.615	-0.869
IFNab	-0.426	-0.115
IFNg	-1.264	0.139
IFNg_GMCSF1	-0.352	-0.478
Rv1432_day32	-0.961	0.01
Rv1565c_day32	-0.264	0.0
secA2_input	0.141	0.114
delta_Rv3594	-0.271	0.061
delta_Rv3717	-0.035	-0.609
delta_Rv3811	-0.87	0.0
delta_Rv0954	-0.283	-0.561
PonA1	-1.929	-0.38
EccD1_KO	1.687	0.51
EspI_KO	0.074	0.853
PE35_KO	1.444	1.103
PPE68_KO	1.901	0.745
glycerol2	0.06	0.303
lignocerate	0.789	0.247
oleate	0.024	0.251
phosphatidylcholine	0.584	0.356
acetate	0.141	-0.318
glucAc	1.043	-0.209
Rv0950ko	-0.727	0.666
Rv1096ko	0.555	-0.344
Rv3684ko	0.082	0.131
delta_otsA_trehalose	-1.196	-0.462