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 Rv1922/-:

update plot	correlation	link to info on gene
Rv1864c/-	(cc=0.5435)	info on Rv1864c/-
Rv3401/-	(cc=0.5281)	info on Rv3401/-
Rv1250/-	(cc=0.4582)	info on Rv1250/-
Rv3309c/upp	(cc=0.4561)	info on Rv3309c/upp
Rv0894/-	(cc=0.4548)	info on Rv0894/-
Rv2466c/-	(cc=0.4504)	info on Rv2466c/-
Rv1563c/treY	(cc=0.4463)	info on Rv1563c/treY
Rv1554/frdC	(cc=0.4457)	info on Rv1554/frdC
Rv0846c/-	(cc=0.4443)	info on Rv0846c/-
Rv1453/-	(cc=0.4436)	info on Rv1453/-

Correlation of Rv1922/- with Rv1250/-

Normalized LFCs for Rv1922/-:
(description and provenance of datasets)

	Rv1922/-	Rv1250/-
Fe_supp_jason_reseq	0.025	-0.278
low_pH_jason_reseq	0.204	0.244
NO_jason_reseq	-0.609	-0.462
B6_jason_reseq	0.558	0.485
MHCII_jason_reseq	0.843	0.332
Isoniazid02	-0.105	-0.755
Rifampicin4	-0.829	-0.065
Ethambutol3	-0.207	-0.411
Meropenem3	0.688	0.649
Vancomycin16	-0.769	-0.218
Rv2680_day32	0.395	0.846
H37Rv_KO_MarP	-0.025	0.23
hypoxia_3wks	0.136	0.084
hypoxia_6wks	-0.035	-0.044
glycerol	0.301	-0.19
cholesterol	0.743	0.035
AJ	0.264	0.109
Bibs02	0.103	0.086
Bibs02c	-0.408	0.17
BL6	0.117	-0.862
BL6a	-0.507	-0.307
BXD01	-0.715	-0.517
BXD010	-0.064	-1.023
BXD011	0.394	-0.358
BXD03	-0.915	-0.783
BXD04	-0.366	-0.57
BXD05	-0.248	-0.658
BXD06	-0.477	-0.554
BXD07	-0.584	-0.625
BXD08	-0.491	-0.117
BXD09	-0.574	-0.621
CAST	0.404	-0.202
CCcont	-0.865	-0.744
DS01	0.527	0.243
DS02	0.35	0.703
DS04	0.059	0.273
DS0c	1.095	0.372
GP01	0.451	0.117
GP02	-0.271	-0.644
GP0c	-0.575	-0.753
NOD	0.361	0.207
NZO	0.321	0.094
PWK	-0.126	-0.134
H37Rv_KO_CtpC	-0.52	-0.049
H37Rv_KO_CtpD	0.093	-1.284
H37Rv_KO_Rv1272	-0.026	-0.238
H37Rv_KO_SugABC	-0.444	0.32
H37Rv_KO_MbtN	0.668	-0.125
Trans05	0.404	-0.23
macrophage_unactivated	0.0	-0.398
IL1	-0.234	-0.338
Rapamycin	-0.896	-0.387
Tcell	-0.228	-0.815
GMCSF	0.198	-0.364
IFNab	-0.348	-0.1
IFNg	-0.409	-0.059
IFNg_GMCSF1	0.079	0.236
Rv1432_day32	0.413	-0.245
Rv1565c_day32	0.329	0.85
secA2_input	-1.229	0.149
delta_Rv3594	0.012	-0.358
delta_Rv3717	-0.395	-0.625
delta_Rv3811	-0.086	-0.457
delta_Rv0954	0.189	-0.359
PonA1	-0.261	-0.16
EccD1_KO	0.497	0.704
EspI_KO	-0.277	0.97
PE35_KO	0.75	0.811
PPE68_KO	1.113	0.809
glycerol2	-0.388	-0.343
lignocerate	-0.337	0.157
oleate	-0.058	-0.098
phosphatidylcholine	-0.289	0.167
acetate	-0.209	-0.216
glucAc	-0.642	-0.24
Rv0950ko	-0.142	-0.492
Rv1096ko	-0.112	0.311
Rv3684ko	-0.278	-0.118
delta_otsA_trehalose	0.522	-0.602